Contacts of the helix formed by residues 1142 - 1168 (chain A) in PDB entry 1B0P
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 PRO1142 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1137A LEU 3.3 1.3 - - - +
1138A ASP* 3.3 29.3 - - - +
1139A ARG 4.2 7.2 - - - +
1140A SER 3.4 7.2 - - - +
1141A PHE* 1.3 87.3 - - - +
1143A GLU* 1.3 71.9 + - + +
1145A ALA* 3.8 3.3 - - + +
1146A LYS* 3.2 24.3 + - - +
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Residues in contact with GLU1143 (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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1141A PHE 3.3 0.8 - - - -
1142A PRO* 1.3 87.9 - - + +
1144A ASP* 1.3 64.9 + - - +
1146A LYS* 3.7 6.0 + - - +
1147A ARG* 3.3 51.0 + - - +
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Residues in contact with ASP1144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1016A ALA* 5.5 0.5 - - - +
1019A ARG* 3.0 35.9 + - - +
1137A LEU* 4.3 3.8 - - + -
1141A PHE* 3.1 22.2 + - + +
1143A GLU* 1.3 79.0 - - - +
1145A ALA* 1.3 63.9 + - - +
1147A ARG* 3.2 25.2 + - - +
1148A LEU* 3.0 30.0 + - + +
1182B ALA* 5.4 7.6 - - - +
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Residues in contact with ALA1145 (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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1134A PHE 5.1 0.2 - - - +
1137A LEU* 3.7 16.3 - - + +
1138A ASP* 3.5 27.8 - - - +
1141A PHE 2.8 15.9 + - - +
1142A PRO 3.8 2.2 - - - +
1143A GLU 3.4 0.2 - - - -
1144A ASP* 1.3 75.6 - - - +
1146A LYS* 1.3 64.8 + - - +
1148A LEU* 3.2 3.5 + - - +
1149A ARG* 2.8 50.9 + - + +
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Residues in contact with LYS1146 (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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1138A ASP* 5.4 0.7 - - - +
1142A PRO 3.2 15.4 + - - +
1143A GLU* 3.8 6.7 - - - +
1145A ALA* 1.3 80.1 - - - +
1147A ARG* 1.3 57.4 + - + +
1149A ARG* 3.9 17.8 - - - +
1150A ALA* 3.0 28.7 + - + +
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Residues in contact with ARG1147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1143A GLU* 3.3 48.3 + - - +
1144A ASP* 3.2 23.8 + - - +
1145A ALA 3.2 0.4 - - - -
1146A LYS* 1.3 78.4 - - + +
1148A LEU* 1.3 55.1 + - + +
1150A ALA* 3.0 9.0 + - - +
1151A GLN* 2.7 35.0 + - - +
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Residues in contact with LEU1148 (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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1007A THR* 3.8 12.3 - - + +
1008A GLY* 3.7 26.0 - - - +
1016A ALA 4.0 1.6 - - - +
1017A GLY* 4.4 0.2 - - - -
1018A LYS 4.4 0.4 - - - +
1019A ARG* 3.8 44.6 - - - +
1137A LEU* 3.7 25.1 - - + -
1144A ASP* 3.0 21.3 + - + +
1145A ALA* 3.9 2.9 - - - +
1147A ARG* 1.3 74.4 - - + +
1149A ARG* 1.3 62.2 + - + +
1151A GLN* 3.5 23.5 - - - +
1152A VAL* 2.9 33.5 + - - +
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Residues in contact with ARG1149 (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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1008A GLY* 6.4 0.7 - - - -
1125A GLU* 2.9 40.1 + - - +
1128A LEU* 3.8 36.4 - - + +
1129A MET* 3.1 34.5 - - - +
1134A PHE* 4.6 10.6 + - + +
1138A ASP* 2.6 33.5 + - - +
1145A ALA* 2.8 37.6 + - - +
1146A LYS* 4.0 16.0 - - - +
1148A LEU* 1.3 76.1 - - + +
1150A ALA* 1.3 65.2 + - - +
1152A VAL* 3.6 3.3 + - - +
1153A ALA* 3.3 21.3 + - - +
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Residues in contact with ALA1150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1146A LYS* 3.0 20.2 + - + +
1147A ARG* 3.0 9.1 + - - +
1149A ARG* 1.3 78.4 - - - +
1151A GLN* 1.3 55.7 + - - +
1153A ALA* 3.3 6.9 + - - +
1154A HIS* 3.0 27.2 + - - +
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Residues in contact with GLN1151 (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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1007A THR* 3.7 12.2 + - + +
1019A ARG 5.4 6.3 + - - -
1020A THR* 6.2 0.2 - - - +
1021A GLY 5.6 2.2 - - - +
1147A ARG 2.7 15.5 + - - +
1148A LEU* 3.5 27.3 - - - +
1149A ARG 3.2 0.2 - - - -
1150A ALA* 1.3 75.4 - - - +
1152A VAL* 1.3 60.3 + - - +
1154A HIS* 3.1 9.9 + - + +
1155A GLU* 2.8 55.4 + - + +
1176B ALA* 6.4 0.6 - - - +
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Residues in contact with VAL1152 (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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1006A PRO* 5.1 5.2 - - + -
1007A THR* 2.9 39.7 - - - +
1008A GLY* 5.2 0.2 - - - -
1095A TYR* 4.3 16.4 - - + -
1124A VAL* 4.3 4.7 - - + -
1128A LEU* 4.2 21.5 - - + -
1134A PHE* 5.1 3.8 - - + -
1148A LEU 2.9 18.0 + - - +
1149A ARG* 3.9 5.8 - - - +
1151A GLN* 1.3 75.6 - - - +
1153A ALA* 1.3 63.0 + - - +
1155A GLU* 3.6 13.2 - - - +
1156A LEU* 3.1 34.2 + - + +
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Residues in contact with ALA1153 (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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1124A VAL* 4.2 20.0 - - + -
1149A ARG 3.3 11.7 + - - +
1150A ALA* 3.7 9.9 - - - +
1151A GLN 3.1 0.6 - - - -
1152A VAL* 1.3 79.0 - - - +
1154A HIS* 1.3 65.3 + - - +
1156A LEU* 3.4 14.9 - - - +
1157A ASP* 3.2 22.0 + - - +
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Residues in contact with HIS1154 (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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1150A ALA 3.0 14.0 + - - +
1151A GLN* 3.1 13.2 + - - +
1153A ALA* 1.3 74.6 - - - +
1155A GLU* 1.3 69.5 + - - +
1157A ASP* 3.0 17.9 + - + +
1158A VAL* 3.1 39.9 + - + +
1172B PHE 4.7 1.0 + - - -
1174B SER* 3.6 35.8 - - - -
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Residues in contact with GLU1155 (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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1006A PRO* 6.0 0.3 - - - +
1007A THR* 2.8 34.6 + - - -
1021A GLY* 4.1 12.5 - - - -
1022A LYS 5.0 2.1 + - - -
1151A GLN* 2.8 42.0 + - + +
1152A VAL* 3.6 11.4 - - - +
1153A ALA 3.2 0.2 - - - -
1154A HIS* 1.3 86.2 - - - +
1156A LEU* 1.3 57.8 + - - +
1158A VAL* 3.4 4.5 + - - +
1159A ARG* 2.9 30.2 + - - +
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Residues in contact with LEU1156 (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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1093A SER 3.7 10.3 - - - +
1094A GLY 3.4 16.5 - - - +
1095A TYR* 4.1 18.8 - - + +
1120A PRO* 3.7 26.6 - - + +
1124A VAL* 3.5 36.3 - - + -
1152A VAL* 3.1 19.4 + - + +
1153A ALA* 3.4 15.5 - - - +
1155A GLU* 1.3 79.9 - - - +
1157A ASP* 1.3 61.9 + - + +
1159A ARG* 3.8 7.0 - - - +
1160A PHE* 3.0 28.8 + - - +
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Residues in contact with ASP1157 (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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1120A PRO* 4.7 14.8 - - - +
1153A ALA 3.2 13.4 + - - +
1154A HIS* 3.0 14.8 + - + +
1156A LEU* 1.3 80.8 - - + +
1158A VAL* 1.3 66.9 + - + +
1160A PHE* 3.6 3.8 + - - +
1161A LYS* 3.2 50.3 + - - +
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Residues in contact with VAL1158 (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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1154A HIS* 3.1 37.8 + - + +
1155A GLU* 3.9 6.7 - - - +
1157A ASP* 1.3 79.2 - - + +
1159A ARG* 1.3 59.1 + - - +
1161A LYS* 3.0 13.5 + - + +
1162A GLU* 2.9 36.8 + - - +
1171B ILE* 4.0 12.3 - - + -
1172B PHE 3.1 36.6 - - - +
1173B GLU* 4.0 11.9 - - + +
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Residues in contact with ARG1159 (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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1024A ASP* 2.7 44.9 + - - +
1026A ALA* 4.4 3.2 - - - +
1027A ARG* 4.1 8.1 - - - +
1095A TYR 5.3 2.0 + - - -
1097A PRO* 3.8 29.9 - - + +
1099A PHE* 3.9 22.2 - - - -
1155A GLU 2.9 19.7 + - - +
1156A LEU* 4.0 7.6 - - - +
1158A VAL* 1.3 74.5 - - - +
1160A PHE* 1.3 66.4 + - - +
1162A GLU* 3.1 18.3 + - - +
1163A LEU* 2.9 40.0 + - + +
1173B GLU* 5.7 3.1 - - - +
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Residues in contact with PHE1160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1094A GLY* 5.4 4.0 - - - +
1097A PRO* 3.9 28.2 - - + +
1115A LEU* 3.3 25.8 - - + -
1117A SER* 3.6 8.5 - - - -
1118A LYS* 3.3 33.4 - - - -
1119A ALA* 3.7 16.4 - - + -
1120A PRO* 3.9 19.5 - - + -
1156A LEU 3.0 20.0 + - - +
1157A ASP 4.0 3.8 - - - +
1159A ARG* 1.3 74.8 - - - +
1161A LYS* 1.3 57.7 + - + +
1163A LEU* 3.2 8.2 + - + +
1164A GLU* 2.9 61.6 + - + +
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Residues in contact with LYS1161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1157A ASP* 3.2 34.3 + - - +
1158A VAL* 3.0 15.6 + - + +
1160A PHE* 1.3 77.8 - - + +
1162A GLU* 1.3 58.4 + - - +
1164A GLU* 3.5 18.6 + - - +
1165A HIS* 3.0 24.8 + - - +
1171B ILE* 3.8 33.8 - - + +
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Residues in contact with GLU1162 (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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1027A ARG* 3.1 38.6 + - - +
1158A VAL* 2.9 23.9 + - - +
1159A ARG* 3.1 18.5 + - - +
1161A LYS* 1.3 75.9 - - - +
1163A LEU* 1.3 59.6 + - + +
1165A HIS* 3.0 10.4 + - - +
1166A MET* 2.9 32.5 + - + +
1171B ILE* 3.6 23.8 - - + +
1173B GLU* 3.6 26.6 - - - +
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Residues in contact with LEU1163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1027A ARG* 3.9 28.0 - - - +
1030A MET* 5.2 0.4 - - + -
1097A PRO* 3.6 34.3 - - + -
1099A PHE* 3.6 24.9 - - + -
1113A PHE* 3.2 34.7 - - + -
1115A LEU* 4.3 11.4 - - + -
1159A ARG* 2.9 27.8 + - + +
1160A PHE* 3.2 11.0 + - - +
1162A GLU* 1.3 74.1 - - + +
1164A GLU* 1.3 60.1 + - - +
1166A MET* 3.2 8.0 + - - -
1167A ALA* 2.9 24.6 + - - +
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Residues in contact with GLU1164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1115A LEU* 4.0 9.9 - - + -
1119A ALA* 4.6 6.4 - - - +
1160A PHE* 2.9 48.5 + - + +
1161A LYS* 3.6 20.8 + - - +
1163A LEU* 1.3 75.0 - - - +
1165A HIS* 1.3 64.3 + - - +
1167A ALA* 3.3 6.3 + - - +
1168A ALA* 3.1 23.7 + - - +
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Residues in contact with HIS1165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1161A LYS 3.0 13.4 + - - +
1162A GLU* 3.1 17.0 - - - +
1164A GLU* 1.3 75.7 - - - +
1166A MET* 1.3 59.3 + - + +
1168A ALA* 3.2 15.6 + - - +
1169A THR* 3.4 13.7 + - - -
1165B HIS* 4.1 38.5 + + - -
1166B MET* 6.2 0.2 - - - -
1168B ALA 5.9 0.4 - - - -
1169B THR* 3.6 34.6 + - - -
1170B ASN* 5.2 3.6 + - - -
1171B ILE* 3.7 24.1 - - + +
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Residues in contact with MET1166 (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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1027A ARG* 4.3 23.1 - - + +
1030A MET* 4.0 17.7 - - + -
1101A TYR* 4.4 10.1 - - + -
1111A ASN* 3.0 17.3 + - - +
1113A PHE* 3.7 37.2 - - + +
1162A GLU* 2.9 18.3 + - + +
1163A LEU* 3.3 28.7 - - - +
1165A HIS* 1.3 77.6 - - + +
1167A ALA* 1.3 57.2 + - - +
1169A THR* 3.0 21.7 - - - +
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Residues in contact with ALA1167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1111A ASN* 2.9 18.8 - - - +
1113A PHE* 3.5 23.7 - - + +
1115A LEU* 4.6 14.4 - - + +
1163A LEU 2.9 16.3 + - - +
1164A GLU* 3.3 8.5 + - - +
1166A MET* 1.3 77.9 - - - +
1168A ALA* 1.3 56.8 + - - +
1169A THR 4.6 0.5 - - - +
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Residues in contact with ALA1168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1164A GLU 3.1 15.2 + - - +
1165A HIS* 3.2 7.5 + - - +
1167A ALA* 1.3 75.7 - - - +
1169A THR* 1.3 64.1 + - - +
1170A ASN* 3.9 4.9 + - - -
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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