Contacts of the helix formed by residues 1090 - 1117 (chain A) in PDB entry 4UHX
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 VAL1090 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1016A VAL* 3.3 32.8 - - + -
1017A GLY* 5.0 4.9 - - - +
1018A LEU* 4.1 17.7 - - + -
1087A GLY 3.5 17.6 + - - +
1088A GLY* 3.6 7.2 - - - +
1089A SER* 1.3 77.2 - - - +
1091A VAL* 1.3 67.5 + - - +
1092A ALA 3.5 1.3 - - - -
1093A ASP* 3.8 12.6 - - + +
1094A LEU* 2.9 50.8 + - + +
1145A TYR* 4.8 10.8 - - + -
1161A TYR* 4.1 6.7 - - - +
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Residues in contact with VAL1091 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1044A GLY* 3.7 19.1 - - - -
1045A ILE 4.2 2.5 - - - +
1047A MET* 5.5 2.5 - - + -
1049A GLN* 4.3 17.3 - - + +
1051A VAL* 3.9 13.9 - - + -
1085A ILE 4.9 0.9 - - - +
1086A SER* 3.6 28.0 - - - +
1087A GLY* 3.5 34.3 - - - +
1089A SER* 3.8 2.7 - - - +
1090A VAL* 1.3 77.0 - - - +
1092A ALA* 1.3 58.7 + - - +
1094A LEU* 5.3 0.4 - - - -
1095A ASN* 2.9 40.3 + - - +
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Residues in contact with ALA1092 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1049A GLN* 6.2 1.8 - - + +
1051A VAL* 3.6 24.0 - - + +
1054A LYS* 3.9 27.8 - - + +
1055A MET* 3.4 15.2 - - + +
1091A VAL* 1.3 76.7 - - - +
1093A ASP* 1.3 59.5 + - - +
1096A GLY* 2.7 32.6 + - - -
1195A ILE* 5.9 3.8 - - + -
1262A LEU* 4.0 4.2 - - - +
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Residues in contact with ASP1093 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1089A SER 4.8 1.8 - - - +
1090A VAL* 3.4 21.9 - - + +
1092A ALA* 1.3 80.6 - - - +
1094A LEU* 1.3 58.6 + - + +
1097A LEU* 3.6 21.7 + - - +
1145A TYR* 2.5 34.1 + - - -
1161A TYR* 2.7 33.6 + - - -
1195A ILE* 6.1 1.1 - - - -
1261A THR* 4.3 2.6 - - - -
1262A LEU* 4.0 23.3 + - - +
1265A SER* 4.7 9.4 + - - +
1267A GLY* 4.2 7.4 + - - -
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Residues in contact with LEU1094 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1018A LEU* 4.2 2.9 - - + -
1023A ALA 5.1 0.4 - - - +
1024A GLY* 3.3 41.7 - - - +
1025A GLN 5.3 0.7 - - - +
1026A ALA* 3.6 16.5 - - + +
1090A VAL* 2.9 47.7 + - + +
1091A VAL* 4.3 1.1 - - - +
1093A ASP* 1.3 71.4 - - - +
1095A ASN* 1.3 66.9 + - - +
1096A GLY 3.2 1.6 - - - -
1097A LEU* 3.2 15.2 + - + +
1098A ALA* 3.3 8.8 + - - +
1142A PHE* 3.7 21.8 - - + +
1145A TYR* 3.6 33.7 - - + +
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Residues in contact with ASN1095 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1026A ALA* 3.8 17.0 - - - +
1027A ALA 3.6 9.7 + - - +
1028A ALA* 4.9 0.3 - - - +
1042A HIS* 3.7 17.0 - - + +
1043A GLY* 3.4 12.8 + - - -
1044A GLY* 3.3 36.7 + - - +
1055A MET* 3.6 7.6 - - - -
1091A VAL* 2.9 33.3 + - + +
1094A LEU* 1.3 73.9 - - - +
1096A GLY* 1.3 58.8 + - - +
1098A ALA* 3.3 3.7 + - - +
1099A VAL* 2.8 34.8 + - - +
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Residues in contact with GLY1096 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1055A MET* 3.3 15.8 - - - -
1058A VAL* 3.8 7.3 - - - +
1092A ALA 2.7 24.4 + - - -
1095A ASN* 1.3 75.0 - - - +
1097A LEU* 1.3 54.6 + - - +
1099A VAL* 3.4 3.2 + - - +
1100A LYS* 2.8 29.5 + - - +
1262A LEU* 3.6 18.8 - - - +
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Residues in contact with LEU1097 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1093A ASP 3.6 17.9 + - - +
1094A LEU* 3.2 8.1 + - - +
1096A GLY* 1.3 75.2 - - - +
1098A ALA* 1.3 57.5 + - - +
1100A LYS* 3.4 23.1 + - - +
1101A ASP* 2.9 28.4 + - - +
1141A TYR 4.7 0.2 - - - +
1142A PHE* 3.5 54.0 - - + -
1145A TYR* 4.1 15.9 - - + +
1260A ASN 5.4 2.0 - - - +
1261A THR 4.8 2.0 - - - -
1262A LEU* 4.0 32.5 - - + +
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Residues in contact with ALA1098 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1026A ALA 3.5 27.6 - - - +
1027A ALA* 3.7 22.7 - - - +
1028A ALA* 4.0 2.7 - - - -
1094A LEU 3.3 7.2 + - - +
1095A ASN* 3.6 8.3 - - - +
1097A LEU* 1.3 76.8 - - - +
1099A VAL* 1.3 63.2 + - - +
1101A ASP 3.3 0.5 + - - -
1102A ALA* 3.1 19.1 + - - +
1140A GLY* 3.3 12.3 - - - -
1141A TYR 3.9 14.4 - - - +
1142A PHE* 4.0 2.4 - - - +
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Residues in contact with VAL1099 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1028A ALA* 3.7 20.2 - - + -
1030A VAL* 5.2 0.9 - - + -
1040A VAL* 4.2 16.6 - - + -
1042A HIS* 4.4 10.3 - - + -
1055A MET* 3.9 25.1 - - + +
1058A VAL* 4.0 8.5 - - + -
1059A VAL* 3.5 31.9 - - + -
1095A ASN 2.8 21.4 + - - +
1096A GLY* 3.7 6.3 - - - +
1098A ALA* 1.3 72.6 - - - +
1100A LYS* 1.3 65.8 + - - +
1102A ALA* 3.5 4.9 + - - +
1103A CYS* 3.2 23.0 + - - -
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Residues in contact with LYS1100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1058A VAL* 4.1 9.2 - - + -
1062A GLU* 3.4 38.8 - - + +
1096A GLY 2.8 17.2 + - - +
1097A LEU* 3.5 22.7 - - - +
1099A VAL* 1.3 76.7 - - - +
1101A ASP* 1.3 64.2 + - - +
1103A CYS* 3.1 4.9 + - - +
1104A GLN* 3.0 48.6 + - - +
1262A LEU* 4.1 15.4 - - + +
1263A TYR* 4.3 8.6 - - + +
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Residues in contact with ASP1101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1097A LEU 2.9 18.7 + - - +
1098A ALA 3.5 6.1 - - - +
1100A LYS* 1.3 78.3 - - - +
1102A ALA* 1.3 58.4 + - - +
1104A GLN* 3.5 10.6 + - - +
1105A THR* 2.8 33.0 + - - -
1139A VAL 4.4 2.8 - - - +
1140A GLY* 3.6 3.1 - - - -
1141A TYR* 2.9 39.9 + - - +
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Residues in contact with ALA1102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1028A ALA* 5.0 1.3 - - + -
1030A VAL* 3.6 28.0 - - + -
1098A ALA 3.1 7.7 + - - +
1099A VAL* 3.8 5.4 - - - +
1100A LYS 3.3 0.2 - - - -
1101A ASP* 1.3 75.8 - - - +
1103A CYS* 1.3 63.6 + - - +
1105A THR* 3.3 6.2 + - - -
1106A LEU* 3.1 28.1 + - - +
1138A ALA* 4.0 6.7 - - - +
1139A VAL 3.9 12.3 - - - +
1140A GLY* 3.6 23.5 - - - +
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Residues in contact with CYS1103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1030A VAL* 4.8 9.0 - - - -
1059A VAL* 4.1 30.7 - - - -
1062A GLU* 3.6 21.3 - - + -
1063A LEU* 3.5 39.3 - - + +
1099A VAL* 3.2 15.5 + - - -
1100A LYS* 3.1 8.6 + - - +
1102A ALA* 1.3 78.4 - - - +
1104A GLN* 1.3 57.6 + - - +
1106A LEU* 3.3 5.5 + - - +
1107A LEU* 3.1 25.4 + - - +
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Residues in contact with GLN1104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1062A GLU* 3.4 25.3 + - - +
1100A LYS* 3.0 45.8 + - - +
1101A ASP* 3.9 8.6 - - - +
1103A CYS* 1.3 72.8 - - - +
1105A THR* 1.3 65.6 + - - +
1107A LEU* 3.1 14.1 + - + +
1108A LYS* 3.0 53.2 + - - +
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Residues in contact with THR1105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1101A ASP* 2.8 26.4 + - - -
1102A ALA* 3.4 11.2 - - - -
1104A GLN* 1.3 76.3 - - - +
1106A LEU* 1.3 61.3 + - - +
1108A LYS* 3.5 9.1 + - + +
1109A ARG* 3.4 51.2 + - + +
1138A ALA* 4.3 6.7 - - + -
1139A VAL 4.5 6.0 + - - +
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Residues in contact with LEU1106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1030A VAL* 3.6 37.5 - - + +
1032A ILE* 4.0 27.6 - - + -
1063A LEU* 4.6 6.1 - - + -
1102A ALA 3.1 18.1 + - - +
1103A CYS* 3.5 11.9 - - - +
1104A GLN 3.2 0.2 - - - -
1105A THR* 1.3 75.5 - - - +
1107A LEU* 1.3 57.0 + - - +
1109A ARG* 3.5 16.4 + - - +
1110A LEU* 3.1 36.5 + - + +
1135A ASN 4.4 1.8 - - - +
1136A LEU* 3.9 29.8 - - + +
1138A ALA* 3.7 19.1 - - + -
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Residues in contact with LEU1107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1062A GLU* 3.1 29.6 - - - +
1063A LEU* 4.2 11.7 - - + -
1064A ARG* 4.4 20.4 - - - +
1103A CYS 3.1 18.8 + - - +
1104A GLN* 3.1 17.2 + - + +
1106A LEU* 1.3 72.7 - - - +
1108A LYS* 1.3 57.6 + - + +
1110A LEU* 3.0 3.5 + - - +
1111A GLU* 2.7 41.5 + - + +
1114A ILE* 3.9 24.2 - - + +
1122A TRP* 4.4 13.2 - - + -
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Residues in contact with LYS1108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1104A GLN* 3.0 53.8 + - - +
1105A THR* 3.7 11.4 - - + +
1107A LEU* 1.3 76.9 - - + +
1109A ARG* 1.3 64.6 + - + +
1111A GLU* 3.5 31.4 + - - +
1112A PRO* 3.9 3.6 - - - +
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Residues in contact with ARG1109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1105A THR* 3.4 37.1 + - + +
1106A LEU* 3.7 14.1 - - - +
1107A LEU 3.2 0.4 - - - -
1108A LYS* 1.3 78.4 - - + +
1110A LEU* 1.3 61.0 + - + +
1111A GLU 3.6 0.5 + - - -
1112A PRO* 3.6 13.3 - - - +
1134A ILE* 3.8 34.6 - - + +
1135A ASN* 3.0 45.1 + - - +
1137A SER 2.9 30.1 + - - -
1138A ALA* 4.0 8.2 - - - +
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Residues in contact with LEU1110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1032A ILE* 4.4 9.9 - - + -
1106A LEU* 3.1 22.6 + - + +
1107A LEU* 3.0 4.1 + - - +
1109A ARG* 1.3 77.7 - - + +
1111A GLU* 1.3 58.8 + - - +
1112A PRO 3.4 2.0 - - - -
1113A ILE* 3.0 15.9 + - + +
1114A ILE* 2.8 44.2 + - + +
1122A TRP* 3.5 37.0 - - + -
1125A TRP* 4.1 11.9 - - + +
1129A ALA* 3.6 31.2 - - + -
1134A ILE* 4.8 4.0 - - + -
1135A ASN 6.0 0.4 - - - +
1136A LEU* 4.1 12.1 - - + -
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Residues in contact with GLU1111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1107A LEU* 2.7 22.6 + - + +
1108A LYS* 3.6 26.1 - - - +
1109A ARG 3.3 0.2 - - - -
1110A LEU* 1.3 71.8 - - - +
1112A PRO* 1.4 72.0 - - + +
1114A ILE* 3.3 8.6 + - + +
1115A SER* 3.0 26.4 + - - -
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Residues in contact with PRO1112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1108A LYS 3.9 4.7 - - - +
1109A ARG 3.6 14.4 - - - +
1111A GLU* 1.4 92.8 - - + +
1113A ILE* 1.3 64.0 + - + +
1115A SER* 2.9 19.7 + - - +
1116A LYS* 3.0 32.7 + - + +
1132A GLU* 5.9 1.8 - - - +
1134A ILE* 5.6 5.2 - - + -
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Residues in contact with ILE1113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1110A LEU* 3.0 27.6 + - + +
1112A PRO* 1.3 78.3 - - + +
1114A ILE* 1.3 61.8 + - + +
1116A LYS* 3.7 5.4 + - - +
1117A ASN* 3.4 22.3 + - + +
1125A TRP* 3.8 30.5 + - + +
1128A THR* 3.5 36.1 - - - +
1129A ALA* 4.1 3.6 - - - +
1132A GLU* 3.5 35.9 - - - +
1134A ILE* 4.3 15.5 - - + -
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Residues in contact with ILE1114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1064A ARG* 4.3 14.6 - - - +
1107A LEU* 3.9 26.0 - - + +
1110A LEU* 2.8 44.2 + - + +
1111A GLU* 4.0 7.6 - - + +
1113A ILE* 1.3 71.0 - - + +
1115A SER* 1.3 60.5 + - - +
1117A ASN 3.1 22.3 - - - -
1118A PRO* 3.2 8.8 - - + +
1122A TRP* 5.1 0.2 - - + -
1125A TRP* 3.7 51.8 - - + -
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Residues in contact with SER1115 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1111A GLU 3.0 13.5 + - - -
1112A PRO* 2.9 20.6 + - - +
1114A ILE* 1.3 75.6 - - - +
1116A LYS* 1.3 70.0 + - - +
1117A ASN 3.4 0.7 + - - -
1118A PRO* 3.5 17.3 - - - +
----------------------------------------------------------
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Residues in contact with LYS1116 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1112A PRO* 3.0 38.2 + - - +
1113A ILE* 3.7 5.6 + - - +
1115A SER* 1.3 87.3 + - - +
1117A ASN* 1.3 59.0 + - + +
1118A PRO* 3.7 5.0 - - - +
----------------------------------------------------------
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Residues in contact with ASN1117 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1113A ILE* 3.4 12.2 + - + +
1114A ILE 3.1 5.7 - - - +
1115A SER 3.2 0.2 - - - -
1116A LYS* 1.3 80.5 - - + +
1118A PRO* 1.3 62.2 - - - +
1119A LYS* 4.0 6.1 + - - +
1120A GLY* 3.1 27.6 + - - -
1124A ASP* 4.2 14.8 + - - +
1125A TRP* 2.8 33.2 + - + +
1128A THR* 5.9 3.2 + - - +
----------------------------------------------------------
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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