Contacts of the helix formed by residues 1163 - 1176 (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 ARG1163 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1110B GLY* 3.1 25.5 + - - -
1113B ASN* 3.1 42.8 + - - +
1115B ASN* 2.8 53.3 + - + +
1116B GLU* 4.7 7.6 + - - +
1120B ALA* 5.6 4.2 - - - +
1162B GLN* 1.3 77.5 + - + +
1164B SER* 1.3 63.7 + - - +
1165B TYR* 3.7 20.6 - - - +
1166B THR* 3.3 25.9 + - - +
1167B VAL* 3.2 25.5 + - - +
1200B ASP* 3.7 15.8 + - - +
1206B TYR* 6.0 2.8 - - - +
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Residues in contact with SER1164 (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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1162B GLN 3.4 4.2 + - - -
1163B ARG* 1.3 71.9 - - - +
1165B TYR* 1.3 60.6 + - - +
1167B VAL* 3.6 2.6 + - - +
1168B ALA* 3.1 24.4 + - - +
1191B THR* 3.4 35.0 + - - +
1198B TRP* 3.8 23.5 - - - +
1199B GLU 3.2 14.7 + - - -
1200B ASP* 2.9 22.6 + - - -
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Residues in contact with TYR1165 (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* 3.5 28.4 + - - -
1111B LEU* 3.1 23.8 - - + +
1120B ALA* 4.7 7.2 - - + -
1163B ARG* 3.7 26.0 - - - +
1164B SER* 1.3 75.6 - - - +
1166B THR* 1.3 64.9 + - - +
1168B ALA* 3.3 1.9 + - - +
1169B ILE* 3.0 52.9 + - + +
1200B ASP* 3.0 14.5 + - + +
1206B TYR* 3.5 22.4 - - + +
1209B GLU* 2.8 44.1 + - + -
1210B ALA* 3.6 20.3 - - + +
1213B TYR* 5.2 2.7 - + - -
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Residues in contact with THR1166 (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* 3.4 32.4 + - + +
1119B MET* 3.9 21.5 - - + -
1120B ALA* 4.7 8.4 - - - +
1161B LEU* 3.7 21.3 - - + -
1163B ARG* 3.3 32.8 + - - +
1165B TYR* 1.3 80.4 - - - +
1167B VAL* 1.3 62.2 + - - +
1169B ILE* 3.3 8.0 - - - +
1170B ALA* 3.1 28.6 + - + +
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Residues in contact with VAL1167 (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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1158B TYR* 3.0 34.1 + - + +
1161B LEU* 3.7 32.8 - - + +
1162B GLN 5.0 1.1 - - - -
1163B ARG 3.2 18.1 + - - +
1164B SER 3.8 4.9 - - - +
1165B TYR 3.3 0.2 - - - -
1166B THR* 1.3 75.6 - - - +
1168B ALA* 1.3 58.1 + - - +
1171B GLY* 3.0 22.2 + - - -
1187B LYS* 4.2 11.0 - - + -
1188B PHE* 3.7 17.5 - - + +
1191B THR* 3.7 30.1 - - + +
1198B TRP* 5.1 0.7 - - - +
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Residues in contact with ALA1168 (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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1164B SER 3.1 19.1 + - - +
1165B TYR 3.7 3.1 - - - +
1167B VAL* 1.3 74.0 - - - +
1169B ILE* 1.3 66.2 + - - +
1170B ALA 3.1 1.6 - - - -
1171B GLY* 3.1 10.4 + - - -
1172B TYR* 3.2 11.1 + - - +
1188B PHE* 3.9 12.1 - - - -
1198B TRP* 4.3 6.1 - - + -
1210B ALA* 3.2 31.4 - - - +
1213B TYR* 4.0 10.6 - - + +
1214B ALA* 4.1 13.0 - - + +
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Residues in contact with ILE1169 (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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1111B LEU* 4.5 2.5 - - + -
1119B MET 5.2 0.2 - - - +
1120B ALA* 3.6 29.6 - - - +
1123B ALA* 3.5 18.7 - - + +
1124B PHE* 4.1 22.4 - - + +
1127B ILE* 3.8 9.5 - - + +
1165B TYR* 3.0 49.7 + - + +
1166B THR* 3.3 14.6 - - + +
1168B ALA* 1.3 76.6 - - - +
1170B ALA* 1.3 61.9 + - - +
1172B TYR* 4.1 0.6 + - - +
1173B ALA* 3.7 13.5 + - - +
1210B ALA* 6.5 0.2 - - - -
1213B TYR* 4.1 32.9 - - + +
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Residues in contact with ALA1170 (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* 4.7 12.6 - - + +
1123B ALA* 3.8 16.8 - - + -
1154B LEU* 4.9 5.5 - - + +
1158B TYR* 3.8 21.5 - - + -
1161B LEU* 4.6 5.2 - - + -
1166B THR* 3.1 21.9 + - + +
1169B ILE* 1.3 76.5 - - + +
1171B GLY* 1.3 65.7 + - - +
1172B TYR 3.3 0.4 - - - -
1173B ALA* 3.4 3.7 + - - +
1174B LEU* 3.3 28.2 + - - +
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Residues in contact with GLY1171 (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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1158B TYR* 3.6 15.9 - - - -
1167B VAL 3.0 18.3 + - - -
1168B ALA 3.1 2.4 + - - -
1170B ALA* 1.3 79.1 - - - +
1172B TYR* 1.3 55.8 + - - +
1174B LEU* 3.3 1.2 + - - -
1175B ALA* 2.9 29.1 + - - +
1180B LEU* 3.3 18.9 - - - +
1188B PHE* 4.4 4.0 - - - -
1217B ALA* 4.1 4.3 - - - -
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Residues in contact with TYR1172 (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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1127B ILE* 3.5 36.1 - - + -
1131B GLU* 3.4 12.6 + - - +
1168B ALA 3.2 9.5 + - - +
1169B ILE 4.5 2.9 - - - +
1170B ALA 3.3 0.2 - - - -
1171B GLY* 1.3 74.6 - - - +
1173B ALA* 1.3 64.0 + - - +
1174B LEU 3.4 0.3 + - - -
1175B ALA* 4.1 0.9 - - - -
1176B GLN* 2.9 60.7 + - + +
1213B TYR* 3.4 30.7 - + + +
1216B LEU* 3.4 40.7 - - + +
1217B ALA* 3.4 26.3 - - + +
1220B GLN* 4.6 10.8 + - + -
1252B MET* 5.6 0.7 - - + -
1255B GLN* 4.6 1.6 + - - -
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Residues in contact with ALA1173 (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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1123B ALA* 3.8 16.4 - - - +
1126B LEU* 3.7 20.9 - - + +
1127B ILE* 3.9 8.7 - - + -
1130B GLN* 2.9 28.0 + - - +
1154B LEU* 4.3 7.6 - - + -
1169B ILE 3.7 13.6 + - - +
1170B ALA 3.4 10.2 + - - +
1171B GLY 3.2 0.2 - - - -
1172B TYR* 1.3 78.4 - - - +
1174B LEU* 1.3 61.2 + - - +
1176B GLN* 4.4 1.1 - - - -
1177B MET* 3.7 10.7 - - - +
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Residues in contact with LEU1174 (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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1151B GLY* 3.7 35.7 - - - +
1154B LEU* 4.1 14.6 - - + -
1155B GLU* 4.2 19.5 - - + +
1158B TYR* 3.9 24.9 - - + -
1170B ALA 3.3 17.8 + - - +
1171B GLY 3.9 3.1 - - - +
1173B ALA* 1.3 82.7 - - - +
1175B ALA* 1.3 62.6 + - - +
1176B GLN 3.2 1.8 - - - -
1177B MET* 3.3 8.0 + - - +
1178B GLY 3.1 3.3 + - - -
1179B ARG* 2.9 52.9 + - + +
1180B LEU* 4.3 8.7 - - + -
1184B LEU* 4.4 5.4 - - + -
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Residues in contact with ALA1175 (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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1171B GLY 2.9 18.0 + - - +
1172B TYR* 3.6 9.8 + - - +
1174B LEU* 1.3 76.0 - - - +
1176B GLN* 1.3 62.6 + - - +
1178B GLY* 3.1 12.6 + - - +
1180B LEU* 4.2 7.6 - - + +
1217B ALA* 3.9 13.0 - - - +
1220B GLN* 3.2 18.4 + - + +
1221B LEU* 3.8 35.4 - - + +
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Residues in contact with GLN1176 (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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1127B ILE* 4.0 8.8 - - - +
1130B GLN* 3.0 49.4 + - + +
1131B GLU* 4.0 18.4 - - - +
1172B TYR* 2.9 61.0 + - + +
1173B ALA* 4.4 0.7 - - - -
1174B LEU 3.2 0.4 - - - -
1175B ALA* 1.3 78.2 - - - +
1177B MET* 1.3 58.5 + - - +
1220B GLN* 3.6 25.6 + - + +
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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