Contacts of the helix formed by residues 1101 - 1122 (chain A) in PDB entry 3Q71
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 SER1101 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1097A TRP* 3.2 3.1 + - - -
1098A ARG* 3.2 35.1 + - - -
1099A ASN 3.4 0.2 - - - -
1100A GLY* 1.3 78.1 - - - +
1102A THR* 1.3 61.9 + - - +
1103A SER* 3.1 27.2 + - - -
1104A SER* 3.1 27.1 + - - -
1105A LEU* 3.2 12.6 + - - +
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Residues in contact with THR1102 (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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1100A GLY 3.3 6.0 + - - +
1101A SER* 1.3 69.4 + - - +
1103A SER* 1.3 67.2 + - - +
1105A LEU* 3.5 17.2 + - + +
1106A LYS* 3.2 34.5 + - - +
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Residues in contact with SER1103 (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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1098A ARG* 6.2 0.9 - - - -
1101A SER* 3.1 11.4 + - - -
1102A THR* 1.3 82.2 + - - +
1104A SER* 1.3 56.2 - - - +
1106A LYS* 3.3 11.4 + - - +
1107A ILE* 2.9 48.9 + - - +
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Residues in contact with SER1104 (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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1095A PRO* 3.6 17.1 - - - +
1096A GLU 2.6 28.8 + - - -
1097A TRP* 3.4 13.7 + - - -
1098A ARG* 4.2 5.2 + - - +
1101A SER* 3.1 18.6 + - - -
1103A SER* 1.3 75.6 - - - +
1105A LEU* 1.3 64.7 + - - +
1107A ILE* 3.5 1.1 + - - -
1108A MET* 3.0 26.7 + - - +
1139A PHE* 4.2 13.5 - - - -
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Residues in contact with LEU1105 (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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1097A TRP* 4.0 27.4 - - + -
1100A GLY 4.7 5.8 - - - +
1101A SER 3.2 10.7 + - - +
1102A THR* 3.6 23.8 - - + +
1103A SER 3.4 0.2 - - - -
1104A SER* 1.3 77.4 - - - +
1106A LYS* 1.3 58.6 + - + +
1108A MET* 3.7 1.9 - - - +
1109A GLU* 2.9 45.0 + - - +
1139A PHE* 4.7 0.9 - - - -
1143A ILE* 4.6 9.0 - - + -
1147A LEU* 3.7 26.8 - - + +
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Residues in contact with LYS1106 (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 THR* 3.2 21.9 + - - +
1103A SER* 3.5 10.5 - - - +
1105A LEU* 1.3 78.5 - - + +
1107A ILE* 1.3 60.6 + - + +
1109A GLU* 3.4 13.2 + - - +
1110A ASP* 2.9 31.1 + - - +
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Residues in contact with ILE1107 (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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1073A MET* 3.8 30.3 - - + -
1074A GLY* 4.6 6.3 - - - -
1095A PRO* 3.7 26.7 - - + -
1103A SER* 2.9 35.8 + - - +
1104A SER* 3.9 3.8 - - - +
1106A LYS* 1.3 78.1 - - + +
1108A MET* 1.3 57.3 + - - +
1110A ASP* 3.3 6.4 + - - +
1111A ILE* 2.9 37.3 + - + +
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Residues in contact with MET1108 (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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1094A ALA* 4.0 20.0 - - + -
1095A PRO* 4.1 2.9 - - + +
1104A SER 3.0 17.7 + - - +
1105A LEU 3.7 3.1 - - - +
1107A ILE* 1.3 74.4 - - - +
1109A GLU* 1.3 65.1 + - - +
1111A ILE* 3.2 11.2 + - - +
1112A ILE* 3.0 32.1 + - + +
1132A ILE* 3.6 47.6 - - + +
1133A GLY* 3.6 17.5 - - - +
1139A PHE* 3.9 31.2 - - + -
1144A PHE* 3.9 19.3 - - + -
1147A LEU* 4.1 6.3 - - + -
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Residues in contact with GLU1109 (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 LEU* 2.9 30.1 + - - +
1106A LYS* 3.7 12.1 - - - +
1108A MET* 1.3 75.5 - - - +
1110A ASP* 1.3 58.3 + - - +
1112A ILE* 3.2 6.2 + - - +
1113A ARG* 3.0 27.8 + - - +
1147A LEU* 3.6 37.7 - - + +
1151A GLU* 3.7 21.6 - - + +
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Residues in contact with ASP1110 (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 LYS 2.9 17.8 + - - +
1107A ILE* 3.3 6.0 + - - +
1108A MET 3.2 0.2 - - - -
1109A GLU* 1.3 73.8 - - - +
1111A ILE* 1.3 62.0 + - - +
1113A ARG* 2.8 40.9 + - - -
1114A GLU* 2.9 31.7 + - - +
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Residues in contact with ILE1111 (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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1032A VAL* 5.6 0.2 - - + -
1074A GLY* 4.1 22.0 - - - +
1076A VAL* 5.0 2.6 - - + +
1092A VAL* 3.8 34.3 - - + -
1093A VAL 3.6 24.7 - - - +
1094A ALA* 3.7 20.0 - - + -
1095A PRO* 3.9 10.3 - - + -
1107A ILE* 2.9 24.2 + - + +
1108A MET* 3.4 10.5 - - - +
1110A ASP* 1.3 76.1 - - - +
1112A ILE* 1.3 64.0 + - - +
1114A GLU* 3.2 5.9 + - - +
1115A CYS* 2.9 27.2 + - - -
1129A PHE* 5.9 0.2 - - + -
1132A ILE* 4.4 11.2 - - + -
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Residues in contact with ILE1112 (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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1108A MET* 3.0 24.9 + - + +
1109A GLU* 3.7 5.8 - - - +
1111A ILE* 1.3 77.6 - - - +
1113A ARG* 1.3 65.7 + - - +
1115A CYS 3.3 0.5 + - - -
1116A MET* 3.3 26.1 + - + +
1129A PHE* 3.7 32.5 - - + -
1132A ILE* 4.7 10.8 - - + -
1144A PHE* 4.1 7.9 - - + -
1147A LEU* 3.5 28.5 - - + -
1148A ILE* 3.8 35.2 - - + +
1151A GLU* 3.8 16.8 - - + -
1152A VAL* 4.8 0.4 - - + -
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Residues in contact with ARG1113 (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 GLU 3.0 13.7 + - - +
1110A ASP* 2.8 35.1 + - - +
1112A ILE* 1.3 77.5 - - - +
1114A GLU* 1.3 82.6 + - - +
1116A MET* 3.2 12.8 + - - +
1117A GLU* 2.7 51.5 + - - +
1151A GLU* 3.3 26.2 - - - +
1155A PHE* 3.9 18.4 - - + -
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Residues in contact with GLU1114 (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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1076A VAL* 4.3 13.2 - - + -
1110A ASP* 2.9 19.9 + - - +
1111A ILE* 3.6 6.5 - - - +
1113A ARG* 1.3 96.1 + - - +
1115A CYS* 1.3 56.9 + - - +
1117A GLU* 3.1 23.4 + - - +
1118A ILE* 2.8 56.8 + - + +
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Residues in contact with CYS1115 (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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1032A VAL* 4.0 13.7 - - - -
1076A VAL* 4.4 6.5 - - - -
1090A LEU* 3.8 21.4 - - + +
1092A VAL* 3.6 29.8 - - - -
1111A ILE* 2.9 22.5 + - - +
1112A ILE 3.8 4.5 - - - +
1113A ARG 3.3 0.2 - - - -
1114A GLU* 1.3 75.9 - - - +
1116A MET* 1.3 58.4 + - - +
1118A ILE* 3.5 4.2 + - - +
1119A THR* 2.8 31.9 + - - -
1127A ILE* 3.8 18.3 - - + +
1129A PHE* 3.9 7.4 - - + -
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Residues in contact with MET1116 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1014A LEU* 4.6 1.8 - - - -
1112A ILE* 3.3 31.3 + - + +
1113A ARG* 3.2 12.6 + - - +
1114A GLU 3.2 0.4 - - - -
1115A CYS* 1.3 74.9 - - - +
1117A GLU* 1.3 65.1 + - - +
1119A THR* 3.1 5.5 + - - -
1120A GLU* 3.0 23.2 + - - +
1127A ILE* 4.5 6.5 - - + -
1129A PHE* 4.1 16.2 - - + -
1151A GLU* 4.2 2.5 - - + +
1152A VAL* 4.0 31.0 - - - -
1155A PHE* 3.7 42.6 - - + -
1164A LEU* 3.7 21.0 - - + +
1167A VAL* 4.2 12.8 - - - -
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Residues in contact with GLU1117 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1113A ARG* 2.7 43.4 + - - +
1114A GLU* 3.4 24.1 - - - +
1116A MET* 1.3 76.8 - - - +
1118A ILE* 1.3 64.3 + - + +
1120A GLU* 3.3 5.8 + - - +
1121A SER* 2.9 24.9 + - - -
1155A PHE* 3.8 16.4 - - + -
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Residues in contact with ILE1118 (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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1076A VAL* 3.8 28.5 - - + +
1078A LYS* 5.5 2.0 - - + -
1090A LEU* 3.9 22.9 - - + -
1114A GLU* 2.8 53.9 + - + +
1115A CYS 3.7 3.8 - - - +
1117A GLU* 1.3 71.6 - - + +
1119A THR* 1.3 64.7 + - - +
1121A SER* 2.6 25.6 + - - +
1122A LEU* 2.9 31.6 + - + +
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Residues in contact with THR1119 (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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1030A VAL* 3.6 22.8 - - + +
1090A LEU* 4.4 1.2 - - - +
1115A CYS 2.8 21.1 + - - -
1116A MET* 3.1 7.8 + - - -
1118A ILE* 1.3 77.6 - - - +
1120A GLU* 1.3 61.4 + - - +
1122A LEU* 3.2 10.0 + - - -
1124A LEU* 3.1 46.1 + - + +
1126A SER 4.1 9.0 - - - +
1127A ILE* 3.5 17.1 - - + +
1164A LEU* 3.9 24.5 - - + -
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Residues in contact with GLU1120 (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 MET 3.0 12.9 + - - +
1117A GLU* 3.7 9.9 - - - +
1119A THR* 1.3 77.0 - - - +
1121A SER* 1.3 57.3 + - - +
1123A SER* 2.9 23.4 + - - -
1155A PHE* 5.2 0.7 - - + -
1160A GLN 4.3 1.8 - - - +
1161A LEU* 3.6 24.8 - - + +
1162A LYS* 2.6 39.8 + - - +
1163A THR* 3.1 9.3 + - - -
1164A LEU* 2.9 36.8 + - + +
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Residues in contact with SER1121 (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 GLU* 2.9 17.4 + - - -
1118A ILE* 2.6 27.2 + - - +
1120A GLU* 1.3 76.7 - - - +
1122A LEU* 1.3 66.8 + - - +
1123A SER* 3.2 4.6 + - - -
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Residues in contact with LEU1122 (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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1030A VAL* 5.3 3.4 - - + -
1078A LYS* 4.0 32.3 - - + +
1088A TYR* 4.4 11.2 - - + -
1090A LEU* 5.5 1.1 - - + -
1118A ILE* 2.9 38.0 + - + +
1119A THR* 3.2 3.3 + - - +
1120A GLU 3.1 0.6 - - - -
1121A SER* 1.3 82.8 - - - +
1123A SER* 1.3 70.4 + - - +
1124A LEU* 3.2 34.0 + - + +
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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