Contacts of the helix formed by residues 1116 - 1131 (chain B) in PDB entry 2WIN
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 GLU1116 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1114B ASN 3.2 3.2 + - - -
1115B ASN* 1.3 78.6 - - + +
1117B LYS* 1.3 58.8 + - - +
1118B ASP* 3.2 7.6 - - - +
1119B MET* 3.7 9.8 + - + +
1120B ALA* 3.5 21.7 + - - +
1160B ASN 3.6 15.3 - - - +
1161B LEU* 3.3 27.4 - - + +
1162B GLN* 3.8 18.7 + - - +
1163B ARG* 4.7 7.7 + - - +
1166B THR* 3.4 21.9 + - + +
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Residues in contact with LYS1117 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1096B PHE 5.3 0.5 - - - +
1098B GLU* 6.4 2.2 - - + -
1111B LEU 5.5 4.9 - - - +
1113B ASN 4.8 5.2 - - - +
1114B ASN* 3.7 25.3 + - + +
1115B ASN 3.5 0.6 - - - -
1116B GLU* 1.3 73.0 - - - +
1118B ASP* 1.3 75.3 + - - +
1119B MET 3.2 2.2 - - - -
1120B ALA* 4.1 7.9 - - - +
1121B LEU* 3.3 30.7 + - + +
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Residues in contact with ASP1118 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1091B LYS* 5.8 3.3 + - - -
1095B VAL* 4.0 14.6 - - + +
1096B PHE 5.6 1.8 - - - -
1116B GLU* 3.2 2.6 - - - -
1117B LYS* 1.3 100.9 + - - +
1119B MET* 1.3 60.5 + - + +
1122B THR* 2.9 24.4 + - - -
1153B PHE* 3.7 20.9 - - + -
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Residues in contact with MET1119 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1116B GLU* 3.7 11.7 + - + +
1117B LYS 3.2 0.2 - - - -
1118B ASP* 1.3 83.6 - - + +
1120B ALA* 1.3 58.3 + - - +
1121B LEU 3.4 0.2 - - - -
1122B THR* 3.9 1.3 - - - -
1123B ALA* 2.9 32.4 + - - +
1153B PHE* 3.7 25.8 - - + -
1154B LEU* 3.6 37.4 - - + +
1157B ASN* 3.3 35.2 - - + +
1158B TYR* 4.6 0.2 - - - -
1161B LEU* 4.1 26.2 - - + -
1166B THR* 3.9 17.5 - - + -
1170B ALA* 4.7 7.6 - - + -
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Residues in contact with ALA1120 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1110B GLY 5.5 0.7 - - - +
1111B LEU* 4.4 20.6 - - + -
1113B ASN 6.2 0.2 - - - +
1115B ASN 5.6 0.9 - - - +
1116B GLU 3.5 15.3 + - - +
1117B LYS* 4.6 5.2 - - - -
1119B MET* 1.3 78.7 - - - +
1121B LEU* 1.3 56.1 - - - +
1123B ALA 3.3 0.7 + - - -
1124B PHE* 2.9 30.2 + - - +
1163B ARG* 5.6 2.7 - - - +
1165B TYR* 4.7 15.7 - - + -
1166B THR* 4.7 7.3 - - - +
1169B ILE* 3.6 19.6 - - + +
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Residues in contact with LEU1121 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1054B THR* 4.8 5.2 - - + -
1055B TRP* 4.4 32.5 - - + +
1096B PHE* 3.3 24.7 - - + +
1097B GLN* 3.9 2.5 - - - -
1098B GLU* 3.5 35.4 - - + +
1111B LEU* 4.4 8.0 - - + +
1117B LYS* 3.3 19.8 + - + +
1119B MET 3.4 0.2 - - - -
1120B ALA* 1.3 78.6 - - - +
1122B THR* 1.3 64.8 + - - +
1124B PHE* 3.1 4.6 + - + +
1125B VAL* 3.0 46.2 + - + +
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Residues in contact with THR1122 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1094B GLY 3.8 21.3 - - - +
1095B VAL* 3.5 8.5 - - - +
1096B PHE* 3.4 32.7 + - + -
1118B ASP 2.9 24.3 + - - -
1119B MET 3.5 3.9 + - - -
1120B ALA 3.4 0.4 - - - -
1121B LEU* 1.3 78.2 - - - +
1123B ALA* 1.3 58.0 + - - +
1125B VAL* 4.3 1.0 - - - +
1126B LEU* 3.1 27.2 + - - +
1150B ALA* 4.4 9.0 - - + +
1153B PHE* 4.8 4.0 - - + -
1154B LEU* 3.8 23.6 - - + -
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Residues in contact with ALA1123 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1119B MET 2.9 18.9 + - - +
1120B ALA 3.6 4.3 - - - +
1122B THR* 1.3 75.7 - - - +
1124B PHE* 1.3 61.8 + - - +
1126B LEU* 3.6 3.1 + - - +
1127B ILE* 3.1 32.7 + - - +
1154B LEU* 4.0 13.9 - - + +
1169B ILE* 3.5 28.3 - - + +
1170B ALA* 3.8 16.4 - - + -
1173B ALA* 3.8 1.8 - - + +
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Residues in contact with PHE1124 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1055B TRP* 3.5 38.8 - + - -
1058B ALA* 4.2 9.6 - - + -
1059B TYR* 3.7 46.0 - + - -
1062B LYS* 3.7 13.8 + - - -
1111B LEU* 4.2 14.8 - - + -
1120B ALA 2.9 16.8 + - - +
1121B LEU* 3.1 4.9 + - - +
1123B ALA* 1.3 75.3 - - - +
1125B VAL* 1.3 68.3 - - + +
1127B ILE* 3.3 15.1 + - - +
1128B SER* 3.5 11.7 + - - -
1169B ILE* 4.1 13.9 - - + +
1213B TYR* 3.7 18.8 - + - -
1248B GLN* 3.6 21.1 - - - -
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Residues in contact with VAL1125 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1054B THR* 4.5 8.1 - - + -
1058B ALA* 3.8 23.1 - - + -
1085B LEU* 4.0 22.9 - - + -
1096B PHE* 3.6 47.3 - - + -
1121B LEU* 3.0 32.5 + - + +
1122B THR 4.3 0.4 - - - +
1124B PHE* 1.3 75.5 - - + +
1126B LEU* 1.3 63.8 + - - +
1128B SER* 3.3 4.4 + - - +
1129B LEU* 3.2 23.3 + - + +
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Residues in contact with LEU1126 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1096B PHE* 5.1 1.5 - - - -
1122B THR 3.1 18.7 + - - +
1123B ALA 3.7 5.2 - - - +
1124B PHE 3.2 0.2 - - - -
1125B VAL* 1.3 77.8 - - - +
1127B ILE* 1.3 61.7 + - - +
1129B LEU* 3.2 14.8 + - + +
1130B GLN* 3.1 41.3 + - + +
1147B ILE* 4.1 10.5 - - + +
1150B ALA* 3.6 30.7 - - + -
1151B GLY* 4.3 1.3 - - - +
1154B LEU* 3.6 26.7 - - + -
1173B ALA* 3.7 13.9 - - + +
1174B LEU* 5.0 0.4 - - + -
1177B MET* 3.6 30.7 - - + -
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Residues in contact with ILE1127 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1062B LYS* 3.5 18.4 - - - +
1123B ALA 3.1 17.9 + - - +
1124B PHE* 3.7 8.5 - - - +
1125B VAL 3.3 0.4 - - - -
1126B LEU* 1.3 76.6 - - - +
1128B SER* 1.3 61.7 + - - +
1130B GLN* 3.4 2.3 + - - +
1131B GLU* 3.2 34.1 + - - +
1169B ILE* 3.8 14.6 - - + +
1172B TYR* 3.5 38.1 - - + -
1173B ALA* 3.9 13.5 - - + -
1176B GLN* 4.0 9.0 - - - +
1213B TYR* 3.5 32.3 - - + -
1252B MET* 6.2 0.7 - - + -
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Residues in contact with SER1128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1058B ALA* 2.9 31.7 + - - -
1061B VAL* 3.3 30.3 - - - +
1062B LYS* 3.5 26.5 - - - +
1065B SER* 4.7 0.2 + - - -
1085B LEU* 6.1 0.4 - - - -
1124B PHE* 3.5 11.6 + - - -
1125B VAL* 3.3 9.5 + - - -
1126B LEU 3.3 0.8 - - - -
1127B ILE* 1.3 78.8 - - - +
1129B LEU* 1.3 61.8 + - - +
1131B GLU* 3.8 5.9 + - - +
1132B ALA* 3.5 12.0 + - - +
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Residues in contact with LEU1129 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1061B VAL* 5.5 0.9 - - + -
1082B VAL* 3.7 36.6 - - + +
1085B LEU* 4.3 21.1 - - + -
1086B ILE* 4.7 6.7 - - + -
1096B PHE* 3.7 32.1 - - + -
1125B VAL* 3.2 19.4 + - + +
1126B LEU* 3.2 15.7 + - + +
1128B SER* 1.3 81.4 - - - +
1130B GLN* 1.3 63.1 + - + +
1132B ALA* 3.7 5.6 + - - +
1133B LYS* 3.6 16.1 + - - +
1143B LEU* 4.0 23.3 - - + +
1146B SER* 4.5 10.5 - - - +
1147B ILE* 4.7 4.4 - - + +
1150B ALA* 6.2 0.2 - - + -
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Residues in contact with GLN1130 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1126B LEU* 3.1 28.0 + - + +
1127B ILE 4.0 0.4 - - - +
1128B SER 3.4 0.2 - - - -
1129B LEU* 1.3 74.5 - - - +
1131B GLU* 1.3 61.7 + - - +
1132B ALA 3.1 2.0 - - - -
1133B LYS* 3.1 27.9 - - + +
1147B ILE* 4.7 14.6 - - + +
1173B ALA* 2.9 27.9 + - - +
1176B GLN* 3.0 45.6 + - + +
1177B MET* 3.2 31.8 - - + +
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Residues in contact with GLU1131 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1062B LYS* 4.2 27.6 + - - +
1065B SER* 3.8 19.3 - - - +
1066B LEU* 5.7 2.8 + - - +
1127B ILE* 3.2 30.3 + - - +
1128B SER* 3.8 4.6 + - - +
1129B LEU 3.4 0.2 - - - -
1130B GLN* 1.3 77.8 - - - +
1132B ALA* 1.3 56.6 + - - +
1133B LYS 3.3 1.5 + - - -
1134B ASP 5.4 0.7 + - - -
1135B ILE* 4.5 6.4 - - - +
1172B TYR* 3.4 15.6 + - - +
1176B GLN* 4.0 12.1 - - - +
1255B GLN* 3.2 26.9 + - - -
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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
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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