X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FexampleFeatures.txt;h=99af214e177ba4b5364d62c0598eb114185eaa40;hb=08f7a2be3977da8704dd4751de7245bcc6fc41c3;hp=c0098a939a2fdaea7ea9393523cb905ce672bed1;hpb=36ed1863ec3b9d261ea7670b13a5bda50e12fb8c;p=jalview.git
diff --git a/examples/exampleFeatures.txt b/examples/exampleFeatures.txt
index c0098a9..99af214 100755
--- a/examples/exampleFeatures.txt
+++ b/examples/exampleFeatures.txt
@@ -1,5 +1,5 @@
-ST-TURN-IIL blue|255,0,255|absolute|20.0|95.0|below|66.0
-GAMMA-TURN-CLASSIC red|0,255,255|20.0|95.0|below|66.0
+ST-TURN-IIL blue
+GAMMA-TURN-CLASSIC lightgray
BETA-TURN-IR 9a6a94
BETA-TURN-IL d6a6ca
BETA-BULGE 1dc451
@@ -24,6 +24,12 @@ BETA-TURN-IIR c79792
PHOSPHORYLATION (T) c88395
BETA-TURN-IIL 8b5b50
ST-MOTIF ac25a1
+kdHydrophobicity ccffcc|333300|-3.9|4.5|above|-2.0
+
+STARTFILTERS
+GAMMA-TURN-INVERSE Label Contains PDB
+kdHydrophobicity (Score LT 1.5) OR (Score GE 2.8)
+ENDFILTERS
STARTGROUP uniprot
Pfam family FER_CAPAA -1 0 0 Pfam
@@ -79,12 +85,12 @@ Iron-sulfur (2Fe-2S) FER_BRANA -1 47 47 METAL
Iron-sulfur (2Fe-2S) FER_BRANA -1 77 77 METAL
Fer2 Status: True Positive Pfam 8_8 FER_BRANA -1 8 83 Pfam
Ferredoxin_fold Status: True Positive FER_BRANA -1 2 96 Cath
-Iron-sulfur (2Fe-2S) FER2_ARATH -1 91 91 METAL
-Iron-sulfur (2Fe-2S) FER2_ARATH -1 96 96 METAL
-Iron-sulfur (2Fe-2S) FER2_ARATH -1 99 99 METAL
-Iron-sulfur (2Fe-2S) FER2_ARATH -1 129 129 METAL
-Fer2 Status: True Positive Pfam 60_13 FER2_ARATH -1 60 135 Pfam
-Ferredoxin_fold Status: True Positive FER2_ARATH -1 50 145 Cath
+Iron-sulfur (2Fe-2S) FER1_ARATH -1 91 91 METAL
+Iron-sulfur (2Fe-2S) FER1_ARATH -1 96 96 METAL
+Iron-sulfur (2Fe-2S) FER1_ARATH -1 99 99 METAL
+Iron-sulfur (2Fe-2S) FER1_ARATH -1 129 129 METAL
+Fer2 Status: True Positive Pfam 60_13 FER1_ARATH -1 60 135 Pfam
+Ferredoxin_fold Status: True Positive FER1_ARATH -1 50 145 Cath
Fer2 Status: True Positive Pfam 60_11 Q93Z60_ARATH -1 60 118 Pfam
Ferredoxin_fold Status: True Positive Q93Z60_ARATH -1 52 118 Cath
Iron-sulfur (2Fe-2S) FER1_MAIZE -1 91 91 METAL
@@ -127,13 +133,13 @@ STARTGROUP netphos
High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 112_11 FER1_SPIOL -1 112 112 PHOSPHORYLATION (S)
High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 139_13 FER1_SPIOL -1 139 139 PHOSPHORYLATION (T)
High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (Y) 73_7 FER1_SPIOL -1 73 73 PHOSPHORYLATION (Y)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 19_1 FER1_ARATH -1 19 19 PHOSPHORYLATION (S)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 24_2 FER1_ARATH -1 24 24 PHOSPHORYLATION (S)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 90_9 FER1_ARATH -1 90 90 PHOSPHORYLATION (S)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 107_10 FER1_ARATH -1 107 107 PHOSPHORYLATION (S)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 114_11 FER1_ARATH -1 114 114 PHOSPHORYLATION (S)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 141_14 FER1_ARATH -1 141 141 PHOSPHORYLATION (T)
-High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (Y) 75_7 FER1_ARATH -1 75 75 PHOSPHORYLATION (Y)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 19_1 FER2_ARATH -1 19 19 PHOSPHORYLATION (S)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 24_2 FER2_ARATH -1 24 24 PHOSPHORYLATION (S)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 90_9 FER2_ARATH -1 90 90 PHOSPHORYLATION (S)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 107_10 FER2_ARATH -1 107 107 PHOSPHORYLATION (S)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 114_11 FER2_ARATH -1 114 114 PHOSPHORYLATION (S)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 141_14 FER2_ARATH -1 141 141 PHOSPHORYLATION (T)
+High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (Y) 75_7 FER2_ARATH -1 75 75 PHOSPHORYLATION (Y)
High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 38_3 FER_BRANA -1 38 38 PHOSPHORYLATION (S)
High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 62_6 FER_BRANA -1 62 62 PHOSPHORYLATION (S)
High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 89_8 FER_BRANA -1 89 89 PHOSPHORYLATION (T)
@@ -310,3 +316,54 @@ NEST-RL FER1_MAIZE -1 124 126 NEST-RL
NEST-RL FER1_MAIZE -1 241 243 NEST-RL
NEST-RL FER1_MAIZE -1 292 294 NEST-RL
ENDGROUP s3dm
+
+STARTGROUP kd
+A Q93XJ9_SOLTU -1 48 48 kdHydrophobicity 1.8
+A Q93XJ9_SOLTU -1 49 49 kdHydrophobicity -0.8
+A Q93XJ9_SOLTU -1 50 50 kdHydrophobicity -1.3
+A Q93XJ9_SOLTU -1 51 51 kdHydrophobicity -3.9
+A Q93XJ9_SOLTU -1 52 52 kdHydrophobicity 4.2
+A Q93XJ9_SOLTU -1 53 53 kdHydrophobicity -3.9
+A Q93XJ9_SOLTU -1 54 54 kdHydrophobicity 3.8
+A Q93XJ9_SOLTU -1 55 55 kdHydrophobicity 4.5
+A Q93XJ9_SOLTU -1 56 56 kdHydrophobicity -0.7
+A Q93XJ9_SOLTU -1 57 57 kdHydrophobicity -1.6
+A Q93XJ9_SOLTU -1 58 58 kdHydrophobicity -3.5
+A Q93XJ9_SOLTU -1 59 59 kdHydrophobicity -0.4
+A Q93XJ9_SOLTU -1 60 60 kdHydrophobicity -1.6
+A Q93XJ9_SOLTU -1 61 61 kdHydrophobicity 4.5
+A Q93XJ9_SOLTU -1 62 62 kdHydrophobicity -3.5
+A Q93XJ9_SOLTU -1 63 63 kdHydrophobicity 2.8
+A FER1_SPIOL -1 51 51 kdHydrophobicity 1.8
+A FER1_SPIOL -1 52 52 kdHydrophobicity 1.8
+A FER1_SPIOL -1 53 53 kdHydrophobicity -1.3
+A FER1_SPIOL -1 54 54 kdHydrophobicity -3.9
+A FER1_SPIOL -1 55 55 kdHydrophobicity 4.2
+A FER1_SPIOL -1 56 56 kdHydrophobicity -0.7
+A FER1_SPIOL -1 57 57 kdHydrophobicity 3.8
+A FER1_SPIOL -1 58 58 kdHydrophobicity 4.2
+A FER1_SPIOL -1 59 59 kdHydrophobicity -0.7
+A FER1_SPIOL -1 60 60 kdHydrophobicity -1.6
+A FER1_SPIOL -1 61 61 kdHydrophobicity -0.7
+A FER1_SPIOL -1 62 62 kdHydrophobicity -0.4
+A FER1_SPIOL -1 63 63 kdHydrophobicity -3.5
+A FER1_SPIOL -1 64 64 kdHydrophobicity 4.2
+A FER1_SPIOL -1 65 65 kdHydrophobicity -3.5
+A FER1_SPIOL -1 66 66 kdHydrophobicity 2.8
+C FER1_MAIZE -1 53 53 kdHydrophobicity 1.8
+C FER1_MAIZE -1 54 54 kdHydrophobicity -0.7
+C FER1_MAIZE -1 55 55 kdHydrophobicity -1.3
+C FER1_MAIZE -1 56 56 kdHydrophobicity -3.5
+C FER1_MAIZE -1 57 57 kdHydrophobicity 4.2
+C FER1_MAIZE -1 58 58 kdHydrophobicity -3.9
+C FER1_MAIZE -1 59 59 kdHydrophobicity 3.8
+C FER1_MAIZE -1 60 60 kdHydrophobicity 4.5
+C FER1_MAIZE -1 61 61 kdHydrophobicity -0.7
+C FER1_MAIZE -1 62 62 kdHydrophobicity -1.6
+C FER1_MAIZE -1 63 63 kdHydrophobicity -3.5
+C FER1_MAIZE -1 64 64 kdHydrophobicity -0.4
+C FER1_MAIZE -1 65 65 kdHydrophobicity -3.5
+C FER1_MAIZE -1 66 66 kdHydrophobicity 4.2
+C FER1_MAIZE -1 67 67 kdHydrophobicity -3.5
+C FER1_MAIZE -1 68 68 kdHydrophobicity 3.8
+ENDGROUP kd