X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fschemes%2FResiduePropertiesTest.java;h=b68ca6898ddc84879f7f20cd8c6c5f4c05589139;hb=6dacd9d2805d0899a59329fdc4e43dfacdf93044;hp=4dff315b5b9495b69d3fbb2f1f759470103f27f7;hpb=05e7a0e244f68d0c7c6e0e23d7c33c1f99f02eab;p=jalview.git diff --git a/test/jalview/schemes/ResiduePropertiesTest.java b/test/jalview/schemes/ResiduePropertiesTest.java index 4dff315..b68ca68 100644 --- 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)); }