Contacts of the helix formed by residues 1109 - 1134 (chain C) in PDB entry 6RIN
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ILE1109 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673C HIS* 3.5 24.2 + - + +
674C ASP* 3.3 1.6 + - - -
1103C VAL* 4.1 21.5 - - + +
1104C PRO* 6.5 0.2 - - + -
1107C MET 3.8 1.8 - - - -
1108C ASN* 1.3 73.1 - - - +
1110C GLY* 1.3 67.2 - - - +
1111C GLN 3.5 0.7 - - - -
1112C ILE* 3.4 21.8 + - + +
1113C LEU* 3.7 11.7 - - + +
639D VAL* 5.7 0.9 - - + -
641D ILE* 4.6 7.9 - - + -
644D MET* 3.6 33.7 - - + -
740D LEU* 3.8 23.3 - - + -
763D PHE* 3.7 28.2 - - + +
764D ARG* 5.0 3.4 - - - +
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Residues in contact with GLY1110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
670C PHE* 4.6 6.0 - - - -
673C HIS* 4.5 8.7 - - - -
674C ASP* 2.8 18.3 + - - -
1070C HIS* 3.7 14.9 - - - -
1108C ASN 2.9 3.2 + - - -
1109C ILE* 1.3 83.3 - - - +
1111C GLN* 1.3 63.4 + - - -
1113C LEU* 2.7 21.7 + - - +
1114C GLU* 3.0 9.5 + - - +
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Residues in contact with GLN1111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804C PHE* 4.3 6.6 - - + -
1070C HIS* 3.4 34.2 + - + +
1072C ASN* 2.2 42.5 + - - +
1098C LEU* 5.3 1.2 - - - +
1102C GLY 5.5 1.4 - - - -
1103C VAL* 3.4 27.1 - - + +
1108C ASN* 3.9 22.2 + - - +
1110C GLY* 1.3 74.3 - - - +
1112C ILE* 1.3 65.6 + - + +
1114C GLU* 3.4 4.1 + - - +
1115C THR* 2.9 31.8 + - - -
1230C MET* 3.6 22.8 - - + +
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Residues in contact with ILE1112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804C PHE* 4.1 19.5 - - + -
1103C VAL* 3.6 31.6 - - + -
1109C ILE* 3.4 19.3 + - + +
1110C GLY 2.8 2.4 + - - -
1111C GLN* 1.3 77.7 - - + +
1113C LEU* 1.3 65.5 + - + +
1115C THR* 3.1 8.9 + - - -
1116C HIS* 3.0 30.8 + - + +
1226C THR* 5.4 4.7 - - + -
639D VAL* 3.7 37.0 - - + +
641D ILE* 4.3 30.5 - - + +
644D MET* 5.6 1.3 - - + -
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Residues in contact with LEU1113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
670C PHE* 3.5 22.0 - - + -
673C HIS* 4.1 28.5 - - + +
1109C ILE* 3.7 24.2 - - + +
1110C GLY* 2.7 14.5 + - - +
1112C ILE* 1.3 75.4 - - + +
1114C GLU* 1.3 63.0 + - - +
1116C HIS* 3.2 8.8 + - - +
1117C LEU* 3.0 24.8 + - - +
1190C ALA 5.6 3.1 - - - +
1191C LYS* 6.2 0.4 - - - -
1192C GLU* 4.8 15.9 - - + +
1195C ILE* 4.7 15.9 - - + +
641D ILE* 3.6 34.3 - - + -
764D ARG* 5.2 3.4 - - + +
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Residues in contact with GLU1114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
669C PRO* 4.2 5.8 - - + +
670C PHE* 3.7 13.3 - - + -
700C VAL* 4.2 21.2 - - + +
1069C ARG* 2.7 35.3 + - - +
1070C HIS* 2.6 45.2 + - - +
1110C GLY 3.0 6.0 + - - +
1111C GLN* 3.5 8.8 - - - +
1113C LEU* 1.3 77.4 - - - +
1115C THR* 1.3 63.9 + - - +
1117C LEU* 3.3 2.7 + - - +
1118C GLY* 3.0 20.8 + - - -
1229C TYR 4.2 6.3 - - - +
1230C MET* 4.8 12.1 - - - +
1231C TYR* 4.1 14.3 + - - +
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Residues in contact with THR1115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802C VAL* 4.7 5.1 - - + +
804C PHE* 4.6 6.0 - - + -
1111C GLN 2.9 15.6 + - - -
1112C ILE* 3.4 12.0 - - - -
1114C GLU* 1.3 78.1 - - - +
1116C HIS* 1.3 63.1 + - - +
1118C GLY* 3.2 1.4 + - - -
1119C MET 2.9 17.5 + - - -
1226C THR* 3.9 16.8 - - + -
1227C VAL 3.7 7.4 - - - +
1228C GLY* 3.4 36.3 - - - +
1229C TYR 4.3 8.1 - - - -
1230C MET* 3.5 23.1 - - - +
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Residues in contact with HIS1116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1112C ILE* 3.0 20.4 + - + +
1113C LEU* 3.2 10.1 + - - +
1115C THR* 1.3 77.7 - - + +
1117C LEU* 1.3 63.8 + - - +
1119C MET* 2.8 19.3 + - + +
1120C ALA* 3.0 11.8 + - - +
1195C ILE* 4.6 16.1 - - + +
1196C LYS* 6.1 0.8 - - - -
1199C LEU* 4.5 9.1 - - + +
1207C SER 4.5 10.5 + - - -
1208C GLY* 3.6 31.1 + - - -
1209C GLN* 5.3 0.4 - - - +
1226C THR* 4.0 23.0 + - + +
1227C VAL 4.9 2.2 - - - -
640D GLY* 5.1 1.7 - - - -
641D ILE* 3.3 48.3 + - + +
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Residues in contact with LEU1117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C PHE* 4.4 11.4 - - + -
670C PHE* 3.6 29.8 - - + -
700C VAL* 3.6 26.5 - - + -
1113C LEU 3.0 16.0 + - - +
1114C GLU 3.9 2.2 - - - +
1116C HIS* 1.3 77.0 - - - +
1118C GLY* 1.3 63.4 + - - +
1120C ALA* 3.1 9.9 + - - +
1121C ALA* 3.0 18.2 + - + +
1182C ILE* 3.6 42.8 - - + +
1184C THR* 5.0 2.0 - - - +
1190C ALA* 4.6 2.7 - - + -
1195C ILE* 4.2 26.2 - - + +
1198C LEU* 5.3 3.8 - - + -
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Residues in contact with GLY1118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699C LEU* 4.8 4.3 - - - +
700C VAL* 4.2 10.3 - - - +
1114C GLU 3.0 14.6 + - - -
1115C THR 3.7 3.4 - - - -
1117C LEU* 1.3 78.4 - - - +
1119C MET* 1.3 61.7 + - - +
1121C ALA* 3.0 10.5 + - - +
1122C LYS* 3.0 24.1 + - - +
1229C TYR* 4.3 22.6 - - - +
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Residues in contact with MET1119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801C ARG* 3.9 32.1 - - - +
1115C THR 2.9 11.7 + - - +
1116C HIS* 2.8 14.1 + - + +
1118C GLY* 1.3 75.5 - - - +
1120C ALA* 1.3 64.8 + - - +
1122C LYS* 3.3 7.6 + - + +
1123C GLY* 2.9 20.3 + - - +
1199C LEU* 4.4 6.1 - - + -
1204C LEU* 3.5 39.2 - - + +
1208C GLY* 5.9 3.4 - - - +
1210C ILE* 4.4 5.6 - - + -
1227C VAL* 3.5 37.0 - - + +
1228C GLY* 3.8 9.9 - - - -
1229C TYR* 4.3 4.8 - - - +
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Residues in contact with ALA1120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1116C HIS 3.0 8.6 + - - +
1117C LEU* 3.3 11.9 - - - +
1119C MET* 1.3 77.6 - - - +
1121C ALA* 1.3 64.8 + - - +
1123C GLY* 3.0 3.5 + - - +
1124C ILE* 3.0 24.2 + - - +
1195C ILE* 5.0 2.2 - - + +
1198C LEU* 3.7 32.7 - - + +
1199C LEU* 3.5 31.9 - - + +
1204C LEU* 5.2 0.2 - - - -
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Residues in contact with ALA1121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699C LEU* 4.5 21.8 - - + -
700C VAL* 6.1 0.2 - - + -
1117C LEU* 3.0 13.2 + - + +
1118C GLY* 3.0 13.7 + - - +
1120C ALA* 1.3 78.8 - - - +
1122C LYS* 1.3 64.4 + - - +
1124C ILE* 3.0 7.2 + - - +
1125C GLY* 3.0 18.0 + - - -
1179C GLY* 5.1 0.2 - - - -
1180C MET* 4.3 27.7 + - - +
1182C ILE* 4.5 13.6 - - + +
1198C LEU* 5.6 0.4 - - - -
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Residues in contact with LYS1122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699C LEU* 5.2 2.4 - - + +
801C ARG* 5.3 2.0 - - - +
1118C GLY 3.0 13.1 + - - +
1119C MET* 4.0 7.9 - - + +
1121C ALA* 1.3 77.4 - - - +
1123C GLY* 1.3 56.0 + - - +
1125C GLY* 3.6 2.4 - - - +
1126C ASP* 2.9 58.1 + - - +
1177C ARG 5.4 2.7 - - - -
1178C LYS* 3.9 35.2 - - - +
1179C GLY* 5.2 2.7 - - - -
1229C TYR* 2.4 66.9 + - + +
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Residues in contact with GLY1123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1119C MET* 2.9 15.9 + - - +
1120C ALA* 3.5 4.5 - - - -
1121C ALA 3.0 0.6 - - - -
1122C LYS* 1.3 75.1 - - - +
1124C ILE* 1.3 66.0 + - - +
1125C GLY 3.2 0.3 + - - -
1126C ASP* 3.2 4.3 + - - +
1127C LYS* 3.0 24.0 + - - +
1202C GLY* 5.4 9.2 - - - -
1203C ASP 6.2 0.4 - - - -
1204C LEU* 4.7 13.5 - - - -
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Residues in contact with ILE1124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1120C ALA 3.0 11.9 + - - +
1121C ALA* 3.0 9.2 + - - +
1123C GLY* 1.3 74.8 - - - +
1125C GLY* 1.3 63.1 + - - +
1127C LYS* 3.3 5.1 + - + +
1128C ILE* 3.0 38.8 + - + +
1144C PHE* 4.4 15.0 - - + -
1148C ALA* 4.6 6.7 - - + -
1180C MET* 3.6 35.0 - - + -
1198C LEU* 4.2 18.8 - - + +
1201C LEU* 4.0 32.5 - - + +
1202C GLY* 4.6 12.7 - - - +
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Residues in contact with GLY1125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1121C ALA 3.0 12.7 + - - -
1122C LYS* 3.2 5.1 + - - -
1123C GLY 3.1 0.2 - - - -
1124C ILE* 1.3 78.0 - - - +
1126C ASP* 1.3 63.5 + - - +
1128C ILE* 3.0 10.9 + - - +
1129C ASN* 2.9 20.6 + - - +
1176C LEU 4.6 4.5 - - - -
1177C ARG* 4.3 9.3 - - - +
1178C LYS 5.1 1.1 - - - -
1179C GLY* 4.3 22.8 - - - -
1180C MET 5.0 0.2 - - - +
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Residues in contact with ASP1126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801C ARG* 5.8 1.4 + - - -
1122C LYS* 2.9 50.6 + - - +
1123C GLY* 4.0 4.7 - - - +
1125C GLY* 1.3 72.6 - - - +
1127C LYS* 1.3 63.6 + - - +
1129C ASN* 3.1 13.3 + - - +
1130C ALA* 2.9 24.1 + - - +
1177C ARG 5.2 2.3 - - - +
1229C TYR* 5.2 0.2 + - - -
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Residues in contact with LYS1127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1123C GLY 3.0 13.0 + - - +
1124C ILE* 3.5 11.0 - - + +
1125C GLY 3.1 0.2 - - - -
1126C ASP* 1.3 77.9 - - - +
1128C ILE* 1.3 63.0 + - - +
1130C ALA* 3.3 8.1 + - + +
1131C MET* 3.0 39.9 + - + +
1144C PHE* 3.6 30.7 - - + -
1201C LEU 6.1 1.3 - - - +
1202C GLY* 6.3 4.3 - - - -
1203C ASP* 3.8 21.7 + - - +
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Residues in contact with ILE1128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1124C ILE* 3.0 29.5 + - + +
1125C GLY* 3.0 9.0 + - - +
1127C LYS* 1.3 75.7 - - - +
1129C ASN* 1.3 65.4 + - - +
1131C MET* 3.1 9.0 + - + +
1132C LEU* 2.9 25.6 + - + +
1141C LEU* 5.3 8.5 - - + -
1144C PHE* 3.8 20.2 - - + -
1145C ILE* 3.6 26.0 - - + -
1173C ALA* 4.5 28.9 - - + +
1176C LEU* 3.9 21.5 - - + -
1177C ARG* 5.3 4.9 - - + -
1179C GLY 6.4 0.2 - - - -
1180C MET* 5.5 1.1 - - + -
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Residues in contact with ASN1129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1125C GLY 2.9 12.9 + - - +
1126C ASP* 3.1 17.1 + - - +
1128C ILE* 1.3 77.3 - - - +
1130C ALA* 1.3 57.5 + - - +
1132C LEU* 3.3 4.4 + - - +
1133C LYS* 2.9 38.2 + - - +
1177C ARG* 2.4 60.6 + - + +
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Residues in contact with ALA1130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1126C ASP 2.9 12.0 + - - +
1127C LYS* 3.6 11.9 - - + +
1129C ASN* 1.3 76.1 - - - +
1131C MET* 1.3 65.1 + - + +
1132C LEU 3.1 0.2 + - - -
1133C LYS* 3.2 5.8 + - - +
1134C GLN* 3.0 31.2 + - + +
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Residues in contact with MET1131 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1127C LYS* 3.0 33.9 + - + +
1128C ILE* 3.1 9.4 + - - +
1130C ALA* 1.3 76.3 - - + +
1132C LEU* 1.3 57.5 + - - +
1134C GLN* 3.0 21.2 - - - +
1136C GLN* 3.4 21.0 + - + +
1140C LYS* 4.2 29.2 - - + +
1141C LEU* 4.7 16.0 - - + +
1144C PHE* 4.1 45.5 - - + -
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Residues in contact with LEU1132 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1128C ILE* 2.9 18.9 + - + +
1129C ASN* 3.8 4.7 - - - +
1131C MET* 1.3 77.6 - - - +
1133C LYS* 1.3 69.7 + - - +
1135C GLN* 3.2 19.0 + - - +
1136C GLN 5.4 0.4 - - - +
1141C LEU* 4.8 12.3 - - + -
1170C MET* 5.0 16.4 - - + +
1173C ALA* 3.8 35.0 - - + +
1174C GLU* 4.5 19.7 - - - +
1177C ARG* 4.2 26.9 - - + +
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Residues in contact with LYS1133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206A GLU* 5.4 5.7 + - - -
1129C ASN* 2.9 35.7 + - - +
1130C ALA* 3.9 4.5 - - - +
1132C LEU* 1.3 81.6 - - - +
1134C GLN* 1.3 67.3 + - + +
1135C GLN* 2.8 11.6 + - - +
1177C ARG* 4.4 9.4 - - - +
----------------------------------------------------------
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Residues in contact with GLN1134 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1130C ALA* 3.0 18.1 + - + +
1131C MET* 3.0 5.4 - - - +
1133C LYS* 1.3 83.0 - - + +
1135C GLN* 1.3 57.8 + - - +
1136C GLN* 2.6 43.3 + - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il