Contacts of the helix formed by residues 1164 - 1186 (chain C) in PDB entry 4DDG
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 ASP1164 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1047C LEU* 4.5 0.6 - - - +
1160C ALA 3.6 7.5 + - - +
1161C SER* 3.2 13.7 + - - +
1163C ASN* 1.3 79.1 - - - +
1165C GLN* 1.3 68.0 + - - +
1166C SER* 3.2 11.2 + - - -
1167C THR* 2.9 39.6 + - - +
1168C SER* 3.3 21.7 + - - -
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Residues in contact with GLN1165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A PHE* 6.0 2.0 - - + -
1047C LEU* 3.9 10.8 - - - +
1086C ARG* 3.2 27.8 + - - +
1094C ARG* 5.7 0.2 - - - +
1163C ASN 3.7 3.0 + - - -
1164C ASP* 1.3 75.5 - - - +
1166C SER* 1.3 63.1 + - - +
1168C SER* 3.8 1.0 - - - -
1169C ASP* 2.9 62.8 + - - +
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Residues in contact with SER1166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 3.5 42.8 - - - +
62A PHE* 4.5 7.4 - - - -
1164C ASP* 3.2 7.8 + - - -
1165C GLN* 1.3 78.3 - - - +
1167C THR* 1.3 61.4 + - - +
1169C ASP* 4.3 6.5 - - - -
1170C TYR* 2.9 41.5 + - - +
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Residues in contact with THR1167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1141C THR* 3.3 29.4 + - + +
1145C LEU* 4.1 23.6 - - + -
1148C GLN* 5.6 1.1 - - - +
1161C SER* 3.9 19.5 - - - +
1162C PHE* 5.9 0.2 - - - -
1164C ASP* 2.9 23.3 + - - +
1166C SER* 1.3 74.2 + - - +
1168C SER* 1.3 67.3 + - - +
1170C TYR* 3.2 2.6 + - - -
1171C LEU* 3.0 19.6 + - - +
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Residues in contact with SER1168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1047C LEU* 4.2 2.0 - - - -
1094C ARG* 2.4 39.4 + - - +
1145C LEU* 5.7 0.9 - - - -
1161C SER 4.4 1.3 + - - -
1162C PHE* 3.2 39.6 + - - +
1164C ASP 3.3 11.9 + - - -
1165C GLN 3.8 1.8 - - - -
1167C THR* 1.3 79.8 - - - +
1169C ASP* 1.3 57.9 + - - +
1171C LEU* 3.1 10.9 + - - +
1172C VAL* 2.9 27.9 + - - +
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Residues in contact with ASP1169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A PHE* 3.7 29.4 - - + -
1047C LEU* 4.4 0.5 - - - +
1090C ASN* 5.3 0.4 + - - -
1094C ARG* 3.3 25.9 + - - -
1165C GLN* 2.9 45.5 + - - +
1166C SER 4.1 0.2 - - - +
1168C SER* 1.3 75.8 - - - +
1170C TYR* 1.3 56.3 + - - +
1172C VAL* 3.1 8.0 + - - +
1173C VAL* 2.9 34.1 + - - +
1211C MET* 4.0 19.0 - - + +
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Residues in contact with TYR1170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET* 3.4 39.3 + - + +
5A ARG* 4.8 2.4 - - - +
60A TYR 4.0 1.3 + - - -
61A PRO* 3.7 18.3 - - + +
62A PHE* 3.1 32.8 - + - -
1137C ASP* 3.9 27.8 + - + +
1138C PHE* 3.5 34.4 - + + +
1141C THR* 3.8 26.7 - - + +
1166C SER* 2.9 33.2 + - - +
1167C THR 3.5 4.0 - - - +
1169C ASP* 1.3 74.5 - - - +
1171C LEU* 1.3 64.0 + - - +
1173C VAL* 3.2 4.5 + - - +
1174C TYR* 3.0 20.6 + - - +
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Residues in contact with LEU1171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1093C TYR 4.5 4.9 - - - +
1094C ARG* 5.1 0.9 - - - -
1097C GLY* 4.8 3.4 - - - -
1101C LEU* 4.7 3.8 - - + -
1138C PHE 5.3 0.9 - - - -
1141C THR* 3.8 5.0 - - - +
1142C PHE* 3.6 33.9 - - + +
1145C LEU* 3.6 28.3 - - + -
1162C PHE* 3.6 34.1 - - + -
1167C THR 3.0 11.8 + - - +
1168C SER* 3.2 11.2 - - - +
1170C TYR* 1.3 76.7 - - - +
1172C VAL* 1.3 70.2 + - + +
1174C TYR* 3.1 8.4 + - - +
1175C LEU* 2.9 42.3 + - + +
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Residues in contact with VAL1172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1090C ASN* 3.7 31.2 - - + -
1093C TYR* 4.0 10.3 - - + +
1094C ARG* 3.8 43.1 - - - +
1168C SER* 2.9 19.4 + - - +
1169C ASP* 3.1 9.4 + - - +
1171C LEU* 1.3 82.4 - - + +
1173C VAL* 1.3 63.4 + - - +
1175C LEU* 3.2 6.8 + - - +
1176C ARG* 2.9 31.7 + - - +
1211C MET* 3.8 10.8 - - + -
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Residues in contact with VAL1173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A PHE* 3.9 20.4 - - + -
94A SER* 5.9 0.2 - - - +
95A PRO* 3.8 27.6 - - + -
1138C PHE* 3.7 28.7 - - + -
1169C ASP 2.9 18.8 + - - +
1170C TYR 3.4 7.6 - - - +
1172C VAL* 1.3 76.4 - - - +
1174C TYR* 1.3 58.0 + - - +
1176C ARG* 3.2 9.6 + - - +
1177C LEU* 2.9 36.0 + - + +
1209C GLU 5.7 1.6 - - - +
1211C MET* 3.6 23.6 - - + -
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Residues in contact with TYR1174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1121C SER* 2.7 25.0 + - - -
1122C LYS* 3.4 11.6 + - + -
1125C LEU* 4.0 14.8 - - + +
1135C ILE* 4.3 7.0 - - + -
1138C PHE* 3.9 21.5 - - + +
1139C HIS* 3.1 44.5 + - + -
1142C PHE* 3.4 39.7 - + + -
1170C TYR 3.0 13.0 + - - +
1171C LEU* 3.1 7.4 + - - +
1173C VAL* 1.3 76.2 - - - +
1175C LEU* 1.3 59.3 + - - +
1177C LEU* 3.1 12.4 + - + +
1178C LEU* 2.9 52.1 + - + +
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Residues in contact with LEU1175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1093C TYR* 3.4 43.3 - - + +
1096C PHE* 4.8 5.2 - - + -
1097C GLY* 4.1 12.1 - - - +
1142C PHE* 4.4 14.1 - - + -
1171C LEU* 2.9 37.8 + - + +
1172C VAL 3.6 6.7 - - - +
1174C TYR* 1.3 74.8 - - - +
1176C ARG* 1.3 54.7 + - - +
1178C LEU* 3.4 13.9 + - + +
1179C THR* 2.6 37.4 + - - -
1223C LEU* 3.7 24.3 - - + +
1227C LEU* 4.2 15.9 - - + -
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Residues in contact with ARG1176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1089C GLY 3.5 8.7 + - - -
1090C ASN* 2.7 30.3 + - - -
1093C TYR* 3.3 42.5 + - + -
1172C VAL* 2.9 22.3 + - - +
1173C VAL* 3.2 9.4 + - - +
1175C LEU* 1.3 76.0 - - - +
1177C LEU* 1.3 57.1 + - + +
1179C THR* 3.2 8.6 + - - -
1180C SER* 2.9 25.8 + - - -
1207C GLU 4.4 1.4 + - - -
1208C VAL* 3.1 41.7 + - - +
1209C GLU* 3.9 11.9 - - - +
1210C PRO 3.6 18.7 + - - -
1211C MET* 4.0 11.5 - - - +
1212C CYS 3.6 4.2 - - - +
1213C LYS 2.8 29.4 + - - -
1214C GLU 5.0 0.8 + - - -
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Residues in contact with LEU1177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A SER* 4.7 3.1 - - - +
96A ALA* 3.9 22.7 - - + -
1125C LEU* 3.7 18.5 - - + +
1130C PHE* 3.8 30.1 - - + -
1135C ILE* 3.9 31.0 - - + -
1138C PHE* 4.5 6.7 - - + -
1173C VAL* 2.9 29.0 + - + +
1174C TYR* 3.1 17.0 + - + +
1176C ARG* 1.3 74.8 - - + +
1178C LEU* 1.3 60.2 + - - +
1180C SER* 3.4 3.7 + - - -
1181C GLY* 2.9 25.8 + - - -
1209C GLU* 4.4 14.6 - - + +
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Residues in contact with LEU1178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1121C SER* 3.6 32.8 - - - +
1125C LEU* 3.9 16.8 - - + +
1142C PHE* 4.4 2.9 - - + -
1174C TYR* 2.9 40.9 + - + +
1175C LEU* 3.6 20.0 - - + +
1177C LEU* 1.3 72.5 - - - +
1179C THR* 1.3 67.4 + - - +
1181C GLY* 3.1 1.0 + - - -
1182C TYR* 2.9 26.7 + - - +
1185C ARG* 5.4 1.2 + - - +
1223C LEU* 4.2 6.7 - - + -
1226C ALA* 4.2 12.2 - - + +
1227C LEU* 3.7 30.3 - - + -
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Residues in contact with THR1179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1093C TYR* 3.4 20.1 - - + +
1175C LEU 2.6 20.5 + - - -
1176C ARG* 3.3 10.5 - - - -
1178C LEU* 1.3 77.8 - - - +
1180C SER* 1.3 57.5 + - - +
1182C TYR* 3.9 0.9 - - - -
1183C LEU* 2.9 37.1 + - + +
1208C VAL* 4.1 13.2 - - + -
1219C HIS* 3.7 33.2 - - + +
1222C ALA* 3.9 13.8 - - + +
1223C LEU* 3.7 17.0 - - - +
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Residues in contact with SER1180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1130C PHE* 4.2 1.7 - - - -
1176C ARG 2.9 14.2 + - - -
1177C LEU* 3.7 4.7 - - - -
1179C THR* 1.3 76.2 - - - +
1181C GLY* 1.3 57.1 + - - +
1183C LEU* 3.3 1.8 + - - +
1184C GLN* 2.9 44.9 + - - +
1204C CYS* 3.2 17.7 - - - +
1208C VAL* 3.7 8.5 - - - +
1209C GLU* 2.9 42.2 + - - -
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Residues in contact with GLY1181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1125C LEU* 3.9 12.3 - - - -
1128C GLN* 2.8 40.9 + - - -
1130C PHE* 4.4 6.0 - - - -
1177C LEU 2.9 15.5 + - - -
1178C LEU 3.1 3.1 + - - -
1180C SER* 1.3 76.2 - - - +
1182C TYR* 1.3 57.4 + - - +
1184C GLN* 3.2 2.4 + - - -
1185C ARG* 2.9 13.6 + - - +
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Residues in contact with TYR1182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1178C LEU 2.9 14.5 + - - +
1179C THR 4.2 0.9 - - - +
1181C GLY* 1.3 74.5 - - - +
1183C LEU* 1.3 63.6 + - - +
1185C ARG* 3.9 30.0 - - - +
1186C GLU* 3.1 54.1 + - + +
1190C PHE* 3.8 23.3 - + - -
1222C ALA* 3.7 17.3 - - - +
1225C GLN* 3.5 45.9 + - + +
1226C ALA* 3.8 22.2 - - + -
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Residues in contact with LEU1183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1179C THR* 2.9 33.5 + - + +
1180C SER 3.4 5.2 - - - +
1181C GLY 3.2 0.2 - - - -
1182C TYR* 1.3 78.1 - - - +
1184C GLN* 1.3 57.0 + - - +
1187C SER* 3.2 25.3 + - - -
1190C PHE* 3.6 46.9 - - + -
1200C VAL* 3.6 9.9 - - + +
1203C PHE* 4.2 14.6 - - + -
1204C CYS* 3.6 21.5 - - - -
1208C VAL* 4.1 18.4 - - + -
1218C ILE* 4.1 12.3 - - + +
1219C HIS* 5.3 2.5 - - - -
1222C ALA* 3.7 15.3 - - + -
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Residues in contact with GLN1184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1128C GLN* 3.9 13.0 - - + +
1130C PHE* 4.1 13.1 - - - -
1180C SER* 2.9 37.8 + - - +
1181C GLY 3.9 2.9 - - - +
1183C LEU* 1.3 74.6 - - - +
1185C ARG* 1.3 65.2 + - - +
1187C SER* 3.1 23.1 + - - -
1200C VAL* 4.2 2.9 - - + -
1201C LYS* 3.4 45.1 - - + +
1204C CYS* 3.8 16.0 - - - +
1209C GLU* 3.6 10.5 + - - -
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Residues in contact with ARG1185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1124C ASP* 3.9 29.0 + - - +
1125C LEU* 5.2 2.0 - - - +
1128C GLN* 2.9 44.8 + - - +
1178C LEU* 5.4 1.2 + - - +
1181C GLY* 2.9 10.9 + - - +
1182C TYR* 3.7 40.9 - - - +
1183C LEU 3.3 0.2 - - - -
1184C GLN* 1.3 80.5 - - - +
1186C GLU* 1.3 73.6 + - + +
1187C SER* 3.2 2.8 + - - -
1188C LYS* 5.7 2.9 - - - +
1226C ALA* 5.5 5.3 + - - +
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Residues in contact with GLU1186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1182C TYR* 3.1 45.5 + - + +
1183C LEU 3.8 1.8 - - - -
1185C ARG* 1.3 87.2 - - + +
1187C SER* 1.3 52.0 + - - +
1188C LYS* 2.9 5.3 + - - +
1189C PHE* 2.6 44.3 + - + +
1190C PHE* 3.6 22.3 + - + -
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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