Contacts of the helix formed by residues 1105 - 1126 (chain A) in PDB entry 1I44
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 THR1105 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1102A PRO* 5.8 5.4 - - + -
1103A PRO 4.4 4.5 - - - +
1104A PRO* 1.3 74.1 - - - +
1106A LEU* 1.3 65.3 + - - +
1107A GLN* 3.1 12.9 + - - +
1108A GLU* 2.8 42.9 + - + +
1109A MET* 2.9 26.7 + - - +
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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
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1105A THR* 1.3 73.6 - - - +
1107A GLN* 1.3 63.5 + - - +
1109A MET* 3.2 11.9 + - + +
1110A ILE* 3.0 40.8 + - + +
1235A PRO* 3.5 37.5 - - + -
1237A ARG* 5.0 14.1 - - + +
1238A VAL* 4.1 13.0 - - + -
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Residues in contact with GLN1107 (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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1105A THR* 3.1 10.9 + - - +
1106A LEU* 1.3 79.7 - - - +
1108A GLU* 1.3 65.2 + - + +
1110A ILE* 3.3 7.8 + - - +
1111A GLN* 3.1 21.9 + - + +
1266A ASP 5.2 8.7 - - - +
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Residues in contact with GLU1108 (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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1102A PRO 5.3 0.7 - - - +
1103A PRO 4.3 1.2 - - - +
1104A PRO* 3.2 16.7 - - + +
1105A THR* 2.8 47.6 + - + +
1107A GLN* 1.3 82.2 - - + +
1109A MET* 1.3 58.3 + - - +
1111A GLN* 3.4 8.5 + - - +
1112A MET* 2.9 35.9 + - + +
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Residues in contact with MET1109 (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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1104A PRO* 3.4 27.1 - - + +
1105A THR 2.9 22.2 + - - +
1106A LEU* 3.2 13.2 + - + +
1108A GLU* 1.3 73.8 - - - +
1110A ILE* 1.3 61.6 + - - +
1112A MET* 3.3 15.1 + - + +
1113A ALA* 2.9 28.6 + - - +
1199A LEU* 5.4 1.0 - - - +
1202A ILE* 3.9 25.0 - - + +
1203A THR* 3.9 31.6 - - - -
1235A PRO* 4.2 22.2 - - + -
1238A VAL* 4.9 10.5 - - + -
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Residues in contact with ILE1110 (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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1106A LEU* 3.0 35.6 + - + +
1107A GLN* 3.7 8.7 - - - +
1109A MET* 1.3 73.0 - - - +
1111A GLN* 1.3 66.9 + - - +
1113A ALA* 3.2 5.7 + - + +
1114A ALA* 2.9 23.2 + - - +
1237A ARG* 4.3 31.2 - - + +
1238A VAL* 4.7 9.4 - - + -
1241A LEU* 4.9 7.4 - - + -
1263A LEU* 4.0 29.2 - - + -
1266A ASP* 4.1 17.0 - - + +
1267A LEU* 3.9 17.7 - - + -
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Residues in contact with GLN1111 (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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1107A GLN* 3.1 14.2 + - + +
1108A GLU* 3.5 12.1 - - - +
1109A MET 3.3 0.2 - - - -
1110A ILE* 1.3 78.8 - - - +
1112A MET* 1.3 60.5 + - + +
1114A ALA* 3.4 1.2 + - - +
1115A GLU* 2.9 68.5 + - - +
1266A ASP 6.0 0.4 - - - +
1267A LEU* 3.8 14.1 - - - +
1268A HIS* 3.0 41.4 + - + +
1270A SER* 5.9 0.2 + - - -
1271A PHE* 3.8 19.2 - - - +
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Residues in contact with MET1112 (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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1084A LEU* 4.1 25.6 - - - -
1087A TYR* 5.7 7.4 - - + -
1088A LEU* 4.9 4.3 - - + -
1104A PRO* 3.9 22.0 - - + -
1108A GLU* 2.9 15.8 + - + +
1109A MET* 3.5 20.0 - - - +
1111A GLN* 1.3 74.5 - - + +
1113A ALA* 1.3 66.2 + - - +
1115A GLU* 3.2 9.3 + - - +
1116A ILE* 2.9 32.1 + - + +
1144A PHE 5.4 1.6 - - - +
1146A VAL* 3.6 21.8 - - + -
1202A ILE* 3.5 40.6 - - + -
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Residues in contact with ALA1113 (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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1109A MET 2.9 17.6 + - - +
1110A ILE* 3.5 8.3 - - + +
1112A MET* 1.3 77.7 - - - +
1114A ALA* 1.3 52.7 + - - +
1116A ILE* 3.2 3.9 + - - +
1117A ALA* 2.8 37.2 + - - +
1195A PHE* 3.7 10.8 - - + -
1199A LEU* 3.7 29.1 - - + +
1202A ILE* 5.2 0.2 - - - +
1241A LEU* 4.9 6.7 - - + -
1263A LEU* 4.0 14.8 - - + -
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Residues in contact with ALA1114 (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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1110A ILE 2.9 16.2 + - - +
1111A GLN 3.7 3.6 - - - +
1113A ALA* 1.3 77.0 - - - +
1115A GLU* 1.3 57.3 + - - +
1117A ALA* 3.7 5.6 - - - +
1118A ASP* 2.8 31.9 + - - +
1260A VAL* 3.8 8.8 - - + +
1263A LEU* 4.0 14.9 - - + +
1267A LEU* 3.6 33.7 - - + -
1271A PHE* 4.2 8.0 - - + -
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Residues in contact with GLU1115 (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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1058A HIS* 3.3 35.5 + - + +
1111A GLN* 2.9 50.3 + - - +
1112A MET* 3.8 5.2 - - - +
1114A ALA* 1.3 74.8 - - - +
1116A ILE* 1.3 64.1 + - - +
1118A ASP* 4.3 0.4 - - - -
1119A GLY* 3.0 19.2 + - - -
1144A PHE 4.2 1.6 - - - +
1145A THR* 3.4 26.8 + - - +
1146A VAL* 2.8 46.0 + - - +
1271A PHE* 4.3 2.5 - - + -
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Residues in contact with ILE1116 (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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1058A HIS 5.7 0.2 - - - -
1084A LEU* 4.0 10.1 - - + -
1112A MET* 2.9 27.3 + - + +
1113A ALA* 3.6 4.9 - - - +
1115A GLU* 1.3 76.3 - - - +
1117A ALA* 1.3 62.8 + - - +
1119A GLY 3.4 1.0 + - - -
1120A MET* 3.0 24.4 + - + +
1133A LEU* 4.5 7.6 - - + -
1138A CYS* 4.3 10.8 - - - -
1146A VAL* 3.7 29.6 - - + -
1147A LYS 5.9 0.2 - - - -
1148A ILE* 3.5 22.9 - - + +
1195A PHE* 3.8 22.0 - - + -
1198A VAL* 3.9 23.8 - - + -
1199A LEU* 5.9 0.2 - - + -
1202A ILE* 4.1 8.3 - - + -
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Residues in contact with ALA1117 (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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1113A ALA 2.8 17.3 + - - +
1114A ALA* 3.7 4.5 - - - +
1116A ILE* 1.3 75.0 - - - +
1118A ASP* 1.3 61.1 + - - +
1120A MET 3.3 0.3 + - - -
1121A ALA* 2.9 26.2 + - - +
1195A PHE* 4.0 6.9 - - + -
1256A PHE* 3.3 24.1 - - + +
1259A ILE* 3.6 32.1 - - + -
1260A VAL* 3.8 11.4 - - + -
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Residues in contact with ASP1118 (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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1056A CYS* 4.2 2.3 - - - -
1058A HIS* 2.5 34.2 + - + +
1114A ALA 2.8 21.3 + - - +
1115A GLU 3.5 0.7 - - - +
1116A ILE 3.3 0.2 - - - -
1117A ALA* 1.3 71.5 - - - +
1119A GLY* 1.3 65.2 + - - +
1121A ALA* 3.3 5.6 + - - +
1122A TYR* 3.1 22.2 + - - +
1260A VAL* 3.7 7.1 - - + +
1271A PHE* 4.2 4.8 - - + -
1275A SER* 3.4 6.7 - - - -
1276A PHE* 2.9 25.2 + - - +
1277A PHE* 3.0 36.2 + - - +
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Residues in contact with GLY1119 (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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1056A CYS* 4.4 0.7 - - - -
1058A HIS* 3.7 27.5 - - - +
1059A VAL* 3.9 7.2 - - - +
1115A GLU 3.0 11.3 + - - -
1116A ILE 3.9 2.2 - - - -
1117A ALA 3.3 0.2 - - - -
1118A ASP* 1.3 75.8 - - - +
1120A MET* 1.3 63.0 + - - +
1122A TYR* 3.2 7.2 + - - +
1123A LEU* 3.1 25.5 + - - +
1148A ILE* 3.9 9.4 - - - -
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Residues in contact with MET1120 (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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1116A ILE* 3.0 21.8 + - + +
1118A ASP 3.3 0.2 - - - -
1119A GLY* 1.3 77.5 - - - +
1121A ALA* 1.3 57.0 + - - +
1123A LEU* 3.2 19.9 + - + +
1124A ASN* 2.9 30.4 + - + +
1128A PHE 5.8 0.9 - - - +
1130A HIS* 3.7 27.8 - - + +
1133A LEU* 3.9 20.9 - - + -
1148A ILE* 3.8 22.2 - - + +
1191A ASP* 3.7 20.4 - - + +
1256A PHE* 3.3 46.3 - - + -
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Residues in contact with ALA1121 (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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1117A ALA 2.9 17.2 + - - +
1118A ASP* 3.5 9.2 - - - +
1120A MET* 1.3 75.2 - - - +
1122A TYR* 1.3 57.5 + - - +
1124A ASN* 3.4 6.2 + - - +
1125A ALA* 2.9 30.5 + - - +
1256A PHE* 3.7 16.5 - - + +
1257A LEU* 3.7 34.3 - - + +
1260A VAL* 5.5 0.9 - - + -
1276A PHE* 3.7 6.3 - - + -
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Residues in contact with TYR1122 (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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1053A GLY 3.5 2.3 + - - -
1054A PHE* 3.4 33.8 - + + -
1055A THR* 2.9 32.8 + - - -
1056A CYS* 3.6 33.7 - - + -
1059A VAL* 4.3 8.7 - - + -
1118A ASP 3.1 13.0 + - - +
1119A GLY 3.3 8.3 - - - +
1120A MET 3.2 0.2 - - - -
1121A ALA* 1.3 77.0 - - - +
1123A LEU* 1.3 67.9 + - + +
1125A ALA* 3.2 4.4 + - + +
1126A LYS* 3.0 53.8 + - + +
1276A PHE* 3.5 31.4 - + + -
1281A GLU* 3.6 21.7 + - - -
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Residues in contact with LEU1123 (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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1054A PHE* 4.1 24.2 - - + -
1059A VAL* 4.4 15.0 - - + -
1119A GLY 3.1 14.0 + - - +
1120A MET* 3.5 22.7 - - + +
1122A TYR* 1.3 80.1 - - + +
1124A ASN* 1.3 57.6 + - - +
1126A LYS* 2.9 17.6 + - - +
1127A LYS 3.2 0.2 + - - -
1128A PHE* 2.9 34.5 + - + +
1130A HIS* 4.4 8.1 - - + +
1148A ILE* 3.9 19.1 - - + -
1150A ASP 3.9 18.6 - - - +
1151A PHE* 4.1 21.8 - - + +
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Residues in contact with ASN1124 (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 MET* 2.9 17.0 + - + +
1121A ALA* 3.8 7.4 - - - +
1123A LEU* 1.3 73.1 - - - +
1125A ALA* 1.3 62.1 + - - +
1127A LYS* 2.9 21.8 + - - +
1128A PHE 3.6 15.3 + - - +
1129A VAL* 5.4 3.8 - - - +
1188A THR* 3.2 43.0 + - - +
1256A PHE* 5.1 2.5 - - + -
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Residues in contact with ALA1125 (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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1121A ALA 2.9 18.0 + - - +
1122A TYR* 3.5 5.8 - - + +
1124A ASN* 1.3 78.6 + - - +
1126A LYS* 1.3 60.9 + - + +
1127A LYS* 3.1 15.1 + - - +
1276A PHE* 3.7 24.7 - - + -
1281A GLU 5.8 0.4 - - - +
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Residues in contact with LYS1126 (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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1053A GLY 4.2 9.8 + - - +
1054A PHE* 4.0 13.0 - - + -
1122A TYR* 3.0 59.4 + - + +
1123A LEU* 2.9 11.5 + - - +
1125A ALA* 1.3 78.8 - - + +
1127A LYS* 1.3 69.2 + - - +
1128A PHE* 3.1 31.3 - - + -
1281A GLU* 4.7 9.4 + - - -
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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
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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