Contacts of the helix formed by residues 1152 - 1178 (chain A) in PDB entry 3B8R
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 THR1152 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1084A ILE* 6.6 0.2 - - - -
1085A GLN* 6.2 1.6 - - - +
1088A VAL* 4.8 2.5 - - - -
1150A ARG 4.8 3.6 - - - +
1151A PRO* 1.3 78.2 - - - +
1153A PHE* 1.3 66.5 + - - +
1154A SER* 3.4 9.9 + - - -
1155A GLU* 2.5 43.0 + - - +
1156A LEU* 2.9 22.9 + - - +
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Residues in contact with PHE1153 (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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1013A ALA* 4.3 9.2 - - - +
1016A MET* 3.4 59.7 - - + -
1017A GLU* 3.9 20.6 - - + +
1020A ALA* 4.4 4.3 - - + -
1084A ILE* 4.0 27.7 - - + +
1087A ASP* 3.7 22.0 - - + -
1088A VAL* 3.8 15.8 - - + +
1091A PHE* 3.8 25.4 - + + -
1152A THR* 1.3 74.1 - - - +
1154A SER* 1.3 57.6 + - - +
1156A LEU* 3.2 16.8 + - + +
1157A VAL* 2.8 35.2 + - - +
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Residues in contact with SER1154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1017A GLU* 2.6 34.0 + - - +
1152A THR* 3.1 9.4 + - - -
1153A PHE* 1.3 78.6 - - - +
1155A GLU* 1.3 63.3 + - - +
1157A VAL* 3.2 4.2 + - - +
1158A GLU* 3.2 20.4 + - - +
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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
----------------------------------------------------------
1150A ARG 4.2 1.4 - - - +
1151A PRO* 3.1 17.1 - - + +
1152A THR* 2.5 48.7 + - - +
1154A SER* 1.3 76.2 - - - +
1156A LEU* 1.3 59.5 + - - +
1158A GLU* 3.1 11.8 + - - +
1159A HIS* 2.9 29.5 + - - +
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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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1013A ALA* 4.6 4.7 - - + -
1088A VAL* 4.2 10.8 - - + -
1091A PHE* 3.7 32.3 - - + -
1138A THR* 3.7 28.7 - - + -
1142A CYS* 3.9 10.3 - - - -
1151A PRO* 3.7 23.6 - - + -
1152A THR 2.9 17.5 + - - +
1153A PHE* 3.5 26.5 - - + +
1155A GLU* 1.3 78.4 - - - +
1157A VAL* 1.3 57.4 + - - +
1159A HIS* 4.3 7.9 - - + -
1160A LEU* 2.9 39.3 + - + +
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Residues in contact with VAL1157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1010A PHE* 3.2 28.4 - - + -
1013A ALA* 3.7 35.2 - - + +
1014A LYS* 3.8 13.7 - - + +
1017A GLU* 3.7 24.9 - - - +
1153A PHE 2.8 20.9 + - - +
1154A SER* 3.2 6.7 + - - +
1156A LEU* 1.3 76.3 - - - +
1158A GLU* 1.3 60.6 + - - +
1161A GLY* 2.9 23.2 + - - -
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Residues in contact with GLU1158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1154A SER 3.2 7.4 + - - +
1155A GLU* 3.1 12.5 + - - +
1157A VAL* 1.3 80.4 - - - +
1159A HIS* 1.3 63.9 + - - +
1161A GLY* 3.2 2.4 + - - -
1162A ASN* 3.0 43.8 + - - +
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Residues in contact with HIS1159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1134A GLU* 4.5 8.8 + - + +
1138A THR* 2.9 34.7 + - + -
1141A ASP* 5.8 2.3 + - - -
1155A GLU 2.9 17.0 + - - +
1156A LEU* 3.8 9.2 - - + +
1158A GLU* 1.3 76.9 - - - +
1160A LEU* 1.3 65.5 + - + +
1162A ASN* 3.0 14.5 + - - +
1163A LEU* 2.9 52.1 + - + +
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Residues in contact with LEU1160 (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 ILE* 3.9 5.8 - - + +
1009A SER* 3.6 34.5 - - - +
1010A PHE* 4.1 17.7 - - + +
1013A ALA* 4.0 6.7 - - + -
1091A PHE* 3.9 22.7 - - + -
1095A LEU* 5.3 1.3 - - + -
1135A MET* 3.8 34.5 - - + -
1138A THR* 4.6 13.7 - - + -
1156A LEU* 2.9 26.8 + - + +
1159A HIS* 1.3 74.8 - - + +
1161A GLY* 1.3 57.3 + - - +
1163A LEU* 3.7 11.1 - - + +
1164A LEU* 2.9 29.6 + - - +
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Residues in contact with GLY1161 (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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1010A PHE* 3.7 18.6 - - - -
1157A VAL 2.9 19.3 + - - -
1158A GLU* 3.5 2.0 - - - -
1159A HIS 3.0 0.2 - - - -
1160A LEU* 1.3 78.4 - - - +
1162A ASN* 1.3 60.2 + - - +
1164A LEU* 3.3 7.5 + - - +
1165A GLN* 3.0 33.0 + - - +
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Residues in contact with ASN1162 (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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1158A GLU* 3.0 42.4 + - - +
1159A HIS* 3.0 11.4 + - - +
1161A GLY* 1.3 76.1 - - - +
1163A LEU* 1.3 61.0 + - + +
1165A GLN* 3.3 9.1 + - - +
1166A ALA* 2.9 29.2 + - - +
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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
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1006A ILE* 4.4 13.7 - - + +
1132A THR* 5.6 0.4 - - - +
1134A GLU* 3.9 36.6 - - + +
1135A MET* 3.8 27.6 - - + -
1138A THR* 4.6 1.3 - - - +
1159A HIS* 2.9 46.8 + - + +
1160A LEU* 3.7 14.6 - - + +
1162A ASN* 1.3 77.7 - - + +
1164A LEU* 1.3 63.9 + - - +
1166A ALA* 3.1 9.6 + - + +
1167A ASN* 2.9 25.7 + - - +
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Residues in contact with LEU1164 (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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1003A GLU* 3.9 39.2 - - + +
1006A ILE* 3.9 17.4 - - + +
1007A CYS* 4.2 14.1 - - + +
1010A PHE* 4.1 33.2 - - + -
1160A LEU 2.9 17.9 + - - +
1161A GLY* 3.4 7.2 - - - +
1162A ASN 3.2 0.2 - - - -
1163A LEU* 1.3 77.5 - - - +
1165A GLN* 1.3 72.3 + - - +
1167A ASN* 3.4 5.5 + - + +
1168A ALA* 3.1 22.7 + - + +
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Residues in contact with GLN1165 (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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1161A GLY* 3.0 19.8 + - - +
1162A ASN* 3.7 9.9 - - - +
1163A LEU 3.2 0.2 - - - -
1164A LEU* 1.3 83.8 + - - +
1166A ALA* 1.3 67.3 + - - +
1168A ALA* 3.1 11.3 + - - +
1169A GLN* 2.9 25.2 + - - +
1172A ARG* 4.6 5.1 + - - +
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Residues in contact with ALA1166 (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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1162A ASN 2.9 17.5 + - - +
1163A LEU* 3.1 13.4 + - + +
1165A GLN* 1.3 76.7 - - - +
1167A ASN* 1.3 63.0 + - - +
1169A GLN* 3.5 9.0 + - - +
1170A GLN* 3.1 40.5 + - - +
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Residues in contact with ASN1167 (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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937A PRO 5.0 0.9 + - - +
1002A LEU* 4.0 21.8 - - - +
1003A GLU* 3.5 41.6 + - - +
1006A ILE* 4.0 17.8 - - + +
1163A LEU 2.9 15.8 + - - +
1164A LEU* 3.6 5.8 - - - +
1166A ALA* 1.3 77.1 - - - +
1168A ALA* 1.3 57.2 + - - +
1170A GLN* 3.4 15.4 + - - +
1171A ASP* 2.8 49.8 + - - +
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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
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1003A GLU* 4.8 15.7 - - - +
1164A LEU* 3.1 15.3 + - + +
1165A GLN* 3.1 17.2 + - - +
1167A ASN* 1.3 75.1 - - - +
1169A GLN* 1.3 59.7 + - - +
1171A ASP* 3.2 8.2 + - - +
1172A ARG* 2.8 50.0 + - - +
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Residues in contact with GLN1169 (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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1165A GLN 2.9 15.2 + - - +
1166A ALA* 3.7 8.4 - - - +
1168A ALA* 1.3 76.4 - - - +
1170A GLN* 1.3 67.7 + - - +
1172A ARG* 2.9 37.0 + - - +
1173A HIS* 3.0 36.1 + - + -
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Residues in contact with GLN1170 (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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1166A ALA* 3.1 32.1 + - - +
1167A ASN* 3.5 13.9 - - - +
1169A GLN* 1.3 82.8 + - + +
1171A ASP* 1.3 59.1 + - - +
1173A HIS* 3.1 11.7 + - - +
1174A HIS* 2.9 48.5 + - + +
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Residues in contact with ASP1171 (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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937A PRO 4.6 0.7 - - - +
938A TYR* 3.3 34.8 - - - +
939A LYS 4.7 4.5 + - - +
1001A THR* 5.7 0.9 + - - -
1003A GLU* 4.3 12.3 - - - +
1167A ASN* 2.8 40.7 + - - +
1168A ALA* 3.4 8.3 - - - +
1169A GLN 3.1 0.2 - - - -
1170A GLN* 1.3 73.0 - - - +
1172A ARG* 1.3 67.1 + - + +
1174A HIS* 3.6 12.7 + - - +
1175A HIS* 2.9 26.7 + - - +
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Residues in contact with ARG1172 (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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1165A GLN* 4.6 5.1 + - - +
1168A ALA* 2.8 27.6 + - - +
1169A GLN* 2.9 42.6 + - - +
1171A ASP* 1.3 76.9 - - + +
1173A HIS* 1.3 59.3 + - + +
1175A HIS* 3.7 5.7 - - - +
1176A HIS* 2.9 30.5 + - - +
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Residues in contact with HIS1173 (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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1169A GLN* 3.0 47.9 + - + -
1170A GLN* 3.1 10.1 + - - +
1172A ARG* 1.3 78.3 - - + +
1174A HIS* 1.3 70.1 + - + +
1176A HIS* 3.1 2.2 + - - -
1177A HIS* 2.8 51.9 + + + +
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Residues in contact with HIS1174 (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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938A TYR* 3.4 62.4 + + + +
990A VAL* 3.6 4.0 - - + +
1170A GLN* 2.9 40.4 + - + +
1171A ASP* 3.6 15.2 + - - +
1173A HIS* 1.3 79.8 - - + +
1175A HIS* 1.3 61.3 + - - +
1178A HIS* 2.9 40.3 + - + +
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Residues in contact with HIS1175 (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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939A LYS* 3.5 21.3 + - + +
990A VAL* 4.1 14.1 - - - -
991A ALA* 4.2 15.0 + - + +
993A GLU* 3.3 35.9 + - - +
1171A ASP 2.9 18.3 + - - +
1172A ARG* 3.7 7.0 - - - +
1174A HIS* 1.3 78.8 - - - +
1176A HIS* 1.3 61.1 + - - +
1178A HIS 3.8 13.5 + - - +
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Residues in contact with HIS1176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1172A ARG 2.9 18.4 + - - +
1173A HIS* 3.1 3.8 + - - +
1175A HIS* 1.3 79.3 - - - +
1177A HIS* 1.3 83.1 + + + +
1178A HIS 3.3 1.6 + - - -
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Residues in contact with HIS1177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1173A HIS* 2.8 51.5 + + + +
1176A HIS* 1.3 99.1 - + - +
1178A HIS* 1.3 80.9 + - + +
----------------------------------------------------------
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Residues in contact with HIS1178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
938A TYR* 6.0 2.2 + - - -
990A VAL* 4.1 21.8 - - + +
991A ALA* 3.8 26.2 + - - +
1174A HIS* 2.9 34.6 + - + +
1175A HIS 4.0 10.6 - - - +
1176A HIS 3.3 3.1 - - - -
1177A HIS* 1.3 99.4 + - + +
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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
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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) + - + + + + + -
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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