JAL-1479 JAL-1979 updated the modified-aminoacid triplet code dictionary in Jalview...

[jalview.git] / test / jalview / schemes / ResiduePropertiesTest.java

diff --git a/test/jalview/schemes/ResiduePropertiesTest.java b/test/jalview/schemes/ResiduePropertiesTest.java
index 4dff315..b68ca68 100644 (file)
--- a/test/jalview/schemes/ResiduePropertiesTest.java
+++ b/test/jalview/schemes/ResiduePropertiesTest.java
@@ -242,6 +242,1307 @@ public class ResiduePropertiesTest
   {
     assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MET"));
     assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSE"));
+
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("00C"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("01W"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("02K"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("03Y"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("07O"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("08P"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("0A0"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("0A1"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("0A2"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0A8"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("0AA"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("0AB"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0AC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0AD"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("0AF"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("0AG"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("0AH"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("0AK"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0AM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0AP"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("0AU"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0AV"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("0AZ"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("0BN"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0C "));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0CS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("0DC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0DG"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("0DT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0FL"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("0G "));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0NC"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("0SP"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("0U "));
+    assertEquals("YG", ResidueProperties.getCanonicalAminoAcid("0YG"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("10C"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("125"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("126"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("127"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("128"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("12A"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("143"));
+    assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("175"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("193"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("1AP"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("1MA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("1MG"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("1PA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("1PI"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("1PR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("1SC"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("1TQ"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("1TY"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("1X6"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("200"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("23F"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("23S"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("26B"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2AD"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2AG"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2AO"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2AR"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2AS"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2AT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("2AU"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("2BD"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2BT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2BU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("2CO"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2DA"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2DF"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2DM"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2DO"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2DT"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("2EG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2FE"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2FI"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("2FM"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2GT"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("2HF"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("2LU"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("2MA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("2MG"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("2ML"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("2MR"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("2MT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("2MU"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2NT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("2OM"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2OT"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2PI"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("2PR"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("2SA"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("2SI"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2ST"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("2TL"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("2TY"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("2VA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("2XA"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("32S"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("32T"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("3AH"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("3AR"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("3CF"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("3DA"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("3DR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("3GA"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("3MD"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("3ME"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("3NF"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("3QN"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("3TY"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("3XH"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("4AC"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("4BF"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("4CF"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("4CY"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4DP"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("4F3"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("4FB"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4FW"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4HT"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("4IN"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("4MF"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("4MM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4OC"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4PC"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4PD"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4PE"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("4PH"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("4SC"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("4SU"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("4TA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("4U7"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("56A"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("5AA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("5AB"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5AT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5BU"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("5CG"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5CM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5CS"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("5FA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5FC"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5FU"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("5HP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5HT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5HU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5IC"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5IT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5IU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5MC"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("5MD"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5MU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5NC"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("5PC"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("5PY"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("5SE"));
+    assertEquals("TWG", ResidueProperties.getCanonicalAminoAcid("5ZA"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("64T"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("6CL"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("6CT"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("6CW"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6HA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("6HC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("6HG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("6HN"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("6HT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6IA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6MA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6MC"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("6MI"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("6MT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("6MZ"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("6OG"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("70U"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("7DA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("7GU"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("7JA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("7MG"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("8AN"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("8FG"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("8MG"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("8OG"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("9NE"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("9NF"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("9NR"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("9NV"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A  "));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("A1P"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A23"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A2L"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A2M"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A34"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A35"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A38"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A39"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A3A"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A3P"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A40"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A43"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A44"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A47"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A5L"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("A5M"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("A5N"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("A5O"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("A66"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AA3"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AA4"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AAR"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AB7"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ABA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ABR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ABS"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ABT"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ACB"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ACL"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AD2"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ADD"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ADX"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AEA"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AEI"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AET"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("AFA"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("AFF"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("AFG"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AGM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("AGT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("AHB"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AHH"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AHO"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AHP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AHS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AHT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AIB"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AKL"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AKZ"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALC"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALM"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALN"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ALO"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ALQ"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALS"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ALV"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("ALY"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AN8"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AP7"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("APE"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("APH"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("API"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("APK"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("APM"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("APP"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AR2"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("AR4"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("AR7"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ARG"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ARM"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ARO"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ARV"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AS "));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("AS2"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AS9"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASA"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASB"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASI"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASK"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASL"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ASM"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ASN"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASP"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("ASQ"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ASU"));
+    assertEquals("ASX", ResidueProperties.getCanonicalAminoAcid("ASX"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ATD"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ATL"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ATM"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AVC"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("AVN"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("AYA"));
+    assertEquals("AYG", ResidueProperties.getCanonicalAminoAcid("AYG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("AZK"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("AZS"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("AZY"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("B1F"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("B1P"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("B2A"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("B2F"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("B2I"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("B2V"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("B3A"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("B3D"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("B3E"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("B3K"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3L"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3M"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3Q"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("B3S"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("B3T"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("B3U"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("B3X"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("B3Y"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BB6"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BB7"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("BB8"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BB9"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BBC"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BCS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BE2"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("BFD"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("BG1"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("BGM"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("BH2"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("BHD"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("BIF"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BIL"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("BIU"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BJH"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("BLE"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("BLY"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("BMP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("BMT"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("BNN"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("BNO"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("BOE"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("BOR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BPE"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("BRU"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("BSE"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("BT5"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("BTA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BTC"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("BTR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("BUC"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("BUG"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("BVP"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("BZG"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C  "));
+    assertEquals("TYG", ResidueProperties.getCanonicalAminoAcid("C12"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("C1X"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C25"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C2L"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C2S"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C31"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C32"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C34"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C36"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C37"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C38"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C3Y"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C42"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C43"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C45"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C46"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C49"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C4R"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C4S"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C5C"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("C66"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("C6C"));
+    assertEquals("TFG", ResidueProperties.getCanonicalAminoAcid("C99"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAF"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CAL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CAV"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CAY"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CB2"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CBR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CBV"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CCC"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("CCL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CCS"));
+    assertEquals("CYG", ResidueProperties.getCanonicalAminoAcid("CCY"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CDE"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CDV"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CDW"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CEA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CFL"));
+    assertEquals("FCYG", ResidueProperties.getCanonicalAminoAcid("CFY")); // check
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CG1"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("CGA"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("CGU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CH "));
+    assertEquals("MYG", ResidueProperties.getCanonicalAminoAcid("CH6"));
+    assertEquals("KYG", ResidueProperties.getCanonicalAminoAcid("CH7"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CHF"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CHG"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CHP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CHS"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("CIR"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CJO"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("CLE"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("CLG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("CLH"));
+    assertEquals("AFG", ResidueProperties.getCanonicalAminoAcid("CLV"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("CM0"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CME"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CMH"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CML"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CMR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CMT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("CNU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CP1"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CPC"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CPI"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CQR"));
+    assertEquals("TLG", ResidueProperties.getCanonicalAminoAcid("CR0"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CR2"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CR5"));
+    assertEquals("KYG", ResidueProperties.getCanonicalAminoAcid("CR7"));
+    assertEquals("HYG", ResidueProperties.getCanonicalAminoAcid("CR8"));
+    assertEquals("TWG", ResidueProperties.getCanonicalAminoAcid("CRF"));
+    assertEquals("THG", ResidueProperties.getCanonicalAminoAcid("CRG"));
+    assertEquals("MYG", ResidueProperties.getCanonicalAminoAcid("CRK"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CRO"));
+    assertEquals("QYG", ResidueProperties.getCanonicalAminoAcid("CRQ"));
+    assertEquals("EYG", ResidueProperties.getCanonicalAminoAcid("CRU"));
+    assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("CRW"));
+    assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("CRX"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS0"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS1"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS3"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CS4"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("CS8"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSB"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSD"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSE"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSF"));
+    assertEquals("SHG", ResidueProperties.getCanonicalAminoAcid("CSH"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("CSI"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSJ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSO"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSP"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSW"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSX"));
+    assertEquals("SYG", ResidueProperties.getCanonicalAminoAcid("CSY"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CSZ"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("CTE"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("CTG"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("CTH"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CUC"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("CWR"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("CXM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY0"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY1"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY3"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CY4"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYD"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYF"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYG"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("CYJ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYQ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CYS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CZ2"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("CZO"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("CZZ"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("D11"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("D1P"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("D3 "));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("D33"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("D3P"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("D3T"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("D4M"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("D4P"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DA "));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DA2"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DAB"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("DAH"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DAL"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("DAR"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DAS"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DBB"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DBM"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DBS"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DBU"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("DBY"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DBZ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DC "));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DC2"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DCG"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DCI"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DCL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DCT"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DCY"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("DDE"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DDG"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DDN"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DDX"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DFC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DFG"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DFI"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DFO"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DFT"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DG "));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DGH"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("DGI"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("DGL"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("DGN"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DHA"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("DHI"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DHL"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DHN"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DHP"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DHU"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DHV"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("DI "));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("DIL"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("DIR"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DIV"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DLE"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DLS"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DLY"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DM0"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DMH"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DMK"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DMT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DN "));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DNE"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DNG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DNL"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DNM"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DNP"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DNR"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("DNS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("DOA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DOC"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DOH"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("DON"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DPB"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("DPH"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("DPL"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DPP"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("DPQ"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("DPR"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DPY"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DRM"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DRP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DRT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DRZ"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DSE"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DSG"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("DSN"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("DSP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DT "));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("DTH"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("DTR"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("DTY"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("DU "));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("DVA"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DXD"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("DXN"));
+    assertEquals("DYG", ResidueProperties.getCanonicalAminoAcid("DYG"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("DYS"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("DZM"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("E  "));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("E1X"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("ECC"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("EDA"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("EFC"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("EHP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("EIT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ENP"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("ESB"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("ESC"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("EXB"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("EXY"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("EY5"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("EYS"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("F2F"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FA2"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FA5"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FAG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FAI"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FB5"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FB6"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("FCL"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FFD"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("FGA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("FGL"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("FGP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("FHL"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("FHO"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("FHU"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("FLA"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("FLE"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("FLT"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("FME"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("FMG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("FMU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("FOE"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("FOX"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("FP9"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("FPA"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("FRD"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("FT6"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("FTR"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("FTY"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("FVA"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("FZN"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G  "));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G25"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G2L"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G2S"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G31"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G32"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G33"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G36"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G38"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G42"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G46"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G47"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G48"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G49"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("G4P"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("G7M"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GAO"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GAU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("GCK"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GCM"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GDP"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GDR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GFL"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GGL"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GH3"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("GHG"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GHP"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GL3"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("GLH"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLJ"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLK"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GLM"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("GLN"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLQ"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GLU"));
+    assertEquals("GLX", ResidueProperties.getCanonicalAminoAcid("GLX"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GLY"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GLZ"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GMA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GMS"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("GMU"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GN7"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GND"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("GNE"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GOM"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("GPL"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GS "));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GSC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GSR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GSS"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("GSU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("GT9"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("GTP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("GVL"));
+    assertEquals("CYG", ResidueProperties.getCanonicalAminoAcid("GYC"));
+    assertEquals("SYG", ResidueProperties.getCanonicalAminoAcid("GYS"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("H2U"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("H5M"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("HAC"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("HAR"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HBN"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("HCS"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("HDP"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("HEU"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("HFA"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("HGL"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HHI"));
+    assertEquals("AK", ResidueProperties.getCanonicalAminoAcid("HHK")); // check
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIA"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIC"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIP"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIQ"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HIS"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("HL2"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("HLU"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("HMR"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("HOL"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPC"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPE"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPH"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("HPQ"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("HQA"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("HRG"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("HRP"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HS8"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HS9"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("HSE"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("HSL"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("HSO"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("HTI"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("HTN"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("HTR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("HV5"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("HVA"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("HY3"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("HYP"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("HZP"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("I  "));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("I2M"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("I58"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("I5C"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("IAM"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("IAR"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("IAS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("IC "));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("IEL"));
+    assertEquals("HYG", ResidueProperties.getCanonicalAminoAcid("IEY"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IG "));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IGL"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IGU"));
+    assertEquals("SHG", ResidueProperties.getCanonicalAminoAcid("IIC"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("IIL"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("ILE"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("ILG"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("ILX"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("IMC"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("IML"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("IOY"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("IPG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("IPN"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("IRN"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("IT1"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("IU "));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("IYR"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("IYT"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("IZO"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("JJJ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("JJK"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("JJL"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("JW5"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("K1R"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("KAG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KCX"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KGC"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("KNB"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("KOR"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KPI"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KST"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("KYQ"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("L2A"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LA2"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("LAA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("LAL"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LBY"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("LC "));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("LCA"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LCC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LCG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LCH"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LCK"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LCX"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LDH"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LED"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEF"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEH"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("LEI"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEM"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEN"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LET"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEU"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("LEX"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LG "));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LGP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LHC"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("LHU"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LKC"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LLP"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LLY"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("LME"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LMF"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("LMQ"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("LMS"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LP6"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("LPD"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LPG"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LPL"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("LPS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LSO"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("LTA"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("LTR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("LVG"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("LVN"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYF"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYK"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYM"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYN"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYR"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYS"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYX"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("LYZ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("M0H"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("M1G"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("M2G"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("M2L"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("M2S"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("M30"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("M3L"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("M5M"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MA "));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MA6"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MA7"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MAA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MAD"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("MAI"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("MBQ"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MBZ"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("MC1"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MCG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("MCL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("MCS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("MCY"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("MD3"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MD6"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MDH"));
+    assertEquals("ASG", ResidueProperties.getCanonicalAminoAcid("MDO"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MDR"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("MEA"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MED"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("MEG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MEN"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("MEP"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("MEQ"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MET"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MEU"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MF3"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("MFC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MG1"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("MGG"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("MGN"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MGQ"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MGV"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MGY"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MHL"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MHO"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("MHS"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MIA"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("MIS"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MK8"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("ML3"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MLE"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MLL"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("MLY"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("MLZ"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MME"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("MMO"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("MMT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("MND"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("MNL"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("MNU"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("MNV"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MOD"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("MP8"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MPH"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MPJ"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MPQ"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MRG"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("MSA"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSE"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSL"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MSO"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("MSP"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("MT2"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("MTR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("MTU"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("MTY"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("MVA"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("N  "));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("N10"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("N2C"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("N5I"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("N5M"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("N6G"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("N7P"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NA8"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NAL"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NAM"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NB8"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("NBQ"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("NC1"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NCB"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NCX"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("NCY"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("NDF"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("NDN"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("NEM"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("NEP"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NF2"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("NFA"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("NHL"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("NIT"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("NIY"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLE"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLN"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLO"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("NLP"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("NLQ"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("NMC"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("NMM"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("NMS"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("NMT"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("NNH"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NP3"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("NPH"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("NPI"));
+    assertEquals("LYG", ResidueProperties.getCanonicalAminoAcid("NRP"));
+    assertEquals("MYG", ResidueProperties.getCanonicalAminoAcid("NRQ"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("NSK"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("NTY"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("NVA"));
+    assertEquals("TWG", ResidueProperties.getCanonicalAminoAcid("NYC"));
+    assertEquals("NYG", ResidueProperties.getCanonicalAminoAcid("NYG"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("NYM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("NYS"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("NZH"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("O12"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("O2C"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("O2G"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("OAD"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("OAS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OBF"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OBS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("OCS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("OCY"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ODP"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("OHI"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("OHS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OIC"));
+    assertEquals("ILE", ResidueProperties.getCanonicalAminoAcid("OIP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OLE"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("OLT"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("OLZ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("OMC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("OMG"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("OMT"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("OMU"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("ONE"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ONH"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ONL"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("OPR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ORN"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("ORQ"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("OSE"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("OTB"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("OTH"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("OTY"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("OXX"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("P  "));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("P1L"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("P1P"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("P2T"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("P2U"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("P2Y"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("P5P"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PAQ"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("PAS"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("PAT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PAU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PBB"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PBF"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PBT"));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("PCA"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PCC"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PCE"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PCS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PDL"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("PDU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PEC"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PF5"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PFF"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PFX"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("PG1"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PG7"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PG9"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PGL"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PGN"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PGP"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PGY"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHA"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("PHD"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHE"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHI"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHL"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PHM"));
+    assertEquals("AYG", ResidueProperties.getCanonicalAminoAcid("PIA"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PIV"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("PLE"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PM3"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PMT"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("POM"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PPN"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PPU"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("PPW"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PQ1"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PR3"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PR5"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PR9"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PRN"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PRO"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("PRS"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("PSA"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("PSH"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("PST"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("PSU"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PSW"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PTA"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PTH"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PTM"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("PTR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PU "));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PUY"));
+    assertEquals("HIS", ResidueProperties.getCanonicalAminoAcid("PVH"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("PVL"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("PYA"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("PYO"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("PYX"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("PYY"));
+    assertEquals("QLG", ResidueProperties.getCanonicalAminoAcid("QLG"));
+    assertEquals("GLN", ResidueProperties.getCanonicalAminoAcid("QMM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("QPA"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("QPH"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("QUO"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("R  "));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("R1A"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("R4K"));
+    assertEquals("HYG", ResidueProperties.getCanonicalAminoAcid("RC7"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("RE0"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("RE3"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("RIA"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("RMP"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("RON"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("RT "));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("RTP"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("S1H"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("S2C"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("S2D"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("S2M"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("S2P"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("S4A"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("S4C"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("S4G"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("S4U"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("S6G"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SAC"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SAH"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("SAR"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SBL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SC "));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SCH"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SCS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SCY"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("SD2"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("SDG"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SDP"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEB"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SEC"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SEG"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEL"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEM"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEN"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SEP"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SER"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SET"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SGB"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SHC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("SHP"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("SHR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SIB"));
+    assertEquals("DC", ResidueProperties.getCanonicalAminoAcid("SIC")); // check
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("SLA"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("SLR"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("SLZ"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SMC"));
+    assertEquals("MET", ResidueProperties.getCanonicalAminoAcid("SME"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("SMF"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SMP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("SMT"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SNC"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("SNN"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SOC"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("SOS"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SOY"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("SPT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("SRA"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("SSU"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("STY"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("SUB"));
+    assertEquals("DG", ResidueProperties.getCanonicalAminoAcid("SUI"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SUN"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("SUR"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVA"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVV"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVW"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVX"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("SVY"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("SVZ"));
+    assertEquals("SWG", ResidueProperties.getCanonicalAminoAcid("SWG"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("SYS"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T  "));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("T11"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T23"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T2S"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("T2T"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("T31"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T32"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T36"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T37"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T38"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T39"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T3P"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T41"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T48"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T49"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T4S"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("T5O"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("T5S"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("T66"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("T6A"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TA3"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TA4"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TAF"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TAL"));
+    assertEquals("ASP", ResidueProperties.getCanonicalAminoAcid("TAV"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("TBG"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TBM"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("TC1"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TCP"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TCQ"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TCR"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("TCY"));
+    assertEquals("LEU", ResidueProperties.getCanonicalAminoAcid("TDD"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TDY"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TFE"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("TFO"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("TFQ"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TFT"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("TGP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TH6"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("THC"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("THO"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("THR"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("THX"));
+    assertEquals("ARG", ResidueProperties.getCanonicalAminoAcid("THZ"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("TIH"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TLB"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TLC"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("TLN"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TMB"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TMD"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("TNB"));
+    assertEquals("SER", ResidueProperties.getCanonicalAminoAcid("TNR"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TOX"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TP1"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("TPC"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("TPG"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TPH"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TPL"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TPO"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TPQ"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TQI"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TQQ"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRF"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("TRG"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRN"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRO"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRP"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRQ"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRW"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TRX"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TS "));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TST"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TT "));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TTD"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("TTI"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("TTM"));
+    assertEquals("TRP", ResidueProperties.getCanonicalAminoAcid("TTQ"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TTS"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY1"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY2"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY3"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TY5"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYB"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYI"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYJ"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYN"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYO"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYQ"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYR"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYS"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYT"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("TYU"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYW"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TYX"));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("TYY"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TZB"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("TZO"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U  "));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U25"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U2L"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U2N"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U2P"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U31"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U33"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U34"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U36"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U37"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("U8U"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UAR"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UCL"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UD5"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("UDP"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("UFP"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UFR"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UFT"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("UMA"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UMP"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UMS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("UN1"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("UN2"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("UNK"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("UR3"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("URD"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("US1"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("US2"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("US3"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("US5"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("USM"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("VAD"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("VAF"));
+    assertEquals("VAL", ResidueProperties.getCanonicalAminoAcid("VAL"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("VB1"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VDL"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VLL"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VLM"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VMS"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("VOL"));
+    assertEquals("GYG", ResidueProperties.getCanonicalAminoAcid("WCR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("X  "));
+    assertEquals("GLU", ResidueProperties.getCanonicalAminoAcid("X2W"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("X4A"));
+    assertEquals("AFG", ResidueProperties.getCanonicalAminoAcid("X9Q"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("XAD"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XAE"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("XAL"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XAR"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCN"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("XCP"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCR"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XCS"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCT"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("XCY"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XGA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XGL"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XGR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XGU"));
+    assertEquals("PRO", ResidueProperties.getCanonicalAminoAcid("XPR"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XSN"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("XTH"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("XTL"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("XTR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XTS"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("XTY"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("XUA"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("XUG"));
+    assertEquals("LYS", ResidueProperties.getCanonicalAminoAcid("XX1"));
+    assertEquals("THG", ResidueProperties.getCanonicalAminoAcid("XXY"));
+    assertEquals("DYG", ResidueProperties.getCanonicalAminoAcid("XYG"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("Y  "));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("YCM"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("YG "));
+    assertEquals("TYR", ResidueProperties.getCanonicalAminoAcid("YOF"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("YRR"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("YYG"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("Z  "));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("Z01"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ZAD"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ZAL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("ZBC"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("ZBU"));
+    assertEquals("PHE", ResidueProperties.getCanonicalAminoAcid("ZCL"));
+    assertEquals("CYS", ResidueProperties.getCanonicalAminoAcid("ZCY"));
+    assertEquals("UR3", ResidueProperties.getCanonicalAminoAcid("ZDU"));
+    assertEquals("XAA", ResidueProperties.getCanonicalAminoAcid("ZFB"));
+    assertEquals("GLY", ResidueProperties.getCanonicalAminoAcid("ZGU"));
+    assertEquals("ASN", ResidueProperties.getCanonicalAminoAcid("ZHP"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ZTH"));
+    assertEquals("THR", ResidueProperties.getCanonicalAminoAcid("ZU0"));
+    assertEquals("ALA", ResidueProperties.getCanonicalAminoAcid("ZZJ"));
+
     assertEquals(null, ResidueProperties.getCanonicalAminoAcid(null));
   }