Contacts of the helix formed by residues 1181 - 1192 (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 LYS1181 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1178B GLY 3.8 21.5 + - - +
1179B ARG* 3.7 9.5 + - - +
1180B LEU* 1.3 79.7 - - - +
1182B GLY* 1.3 70.3 + - - +
1183B PRO* 4.1 1.4 - - - +
1184B LEU* 3.3 19.6 + - - +
1185B LEU* 3.3 12.7 + - + -
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Residues in contact with GLY1182 (chain B).
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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1181B LYS* 1.3 76.8 - - - +
1183B PRO* 1.3 72.7 - - - +
1185B LEU* 3.0 15.5 + - - +
1186B ASN* 3.3 11.4 + - - +
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Residues in contact with PRO1183 (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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1159B MET* 3.9 24.2 - - + +
1181B LYS 4.1 1.1 - - - +
1182B GLY* 1.3 83.3 - - - +
1184B LEU* 1.3 71.8 + - + +
1186B ASN* 3.2 9.3 + - + +
1187B LYS* 3.0 30.3 + - - +
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Residues in contact with LEU1184 (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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1155B GLU* 3.6 46.4 - - + +
1158B TYR* 3.4 44.2 - - + -
1159B MET* 4.3 14.6 - - + -
1174B LEU* 4.4 4.5 - - + -
1179B ARG 4.4 11.4 - - - +
1180B LEU* 3.8 12.4 - - + +
1181B LYS 3.4 11.4 - - - +
1182B GLY 3.2 0.6 - - - -
1183B PRO* 1.3 93.9 - - + +
1185B LEU* 1.3 62.0 + - - +
1187B LYS* 3.5 0.4 + - - -
1188B PHE* 3.3 17.2 + - - +
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Residues in contact with LEU1185 (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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1180B LEU* 3.2 32.3 + - + +
1181B LYS* 3.3 13.0 + - + -
1182B GLY 3.0 11.9 + - - +
1184B LEU* 1.3 79.1 - - - +
1186B ASN* 1.3 63.0 + - - +
1188B PHE* 3.7 4.4 + - + +
1189B LEU* 3.3 46.2 + - + +
1221B LEU* 3.8 23.8 - - + -
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Residues in contact with ASN1186 (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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1182B GLY 3.3 7.8 + - - +
1183B PRO* 3.2 13.0 + - + +
1185B LEU* 1.3 77.4 - - - +
1187B LYS* 1.3 63.7 + - - +
1189B LEU* 3.3 8.9 + - - +
1190B THR* 3.0 39.8 + - - +
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Residues in contact with LYS1187 (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* 3.3 35.0 - - + +
1159B MET* 4.0 34.7 + - + +
1161B LEU* 3.2 32.5 + - - +
1167B VAL* 4.2 10.0 - - + +
1183B PRO 3.0 15.6 + - - +
1184B LEU 3.8 5.2 - - - +
1185B LEU 3.4 0.2 - - - -
1186B ASN* 1.3 77.4 - - - +
1188B PHE* 1.3 58.5 + - - +
1190B THR* 3.0 9.7 + - - +
1191B THR* 2.7 39.7 + - - +
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Residues in contact with PHE1188 (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* 3.3 24.6 + - - +
1167B VAL* 3.7 19.3 - - + -
1168B ALA* 3.9 24.0 - - - -
1171B GLY* 4.4 3.6 - - - -
1180B LEU* 4.7 14.1 - - + -
1184B LEU 3.3 10.8 + - - +
1185B LEU* 3.9 7.2 - - + +
1186B ASN 3.4 0.2 - - - -
1187B LYS* 1.3 80.0 - - - +
1189B LEU* 1.3 73.3 + - + +
1191B THR* 3.6 1.9 - - - -
1198B TRP* 3.0 42.9 + + - -
1214B ALA* 3.5 37.2 - - + -
1217B ALA* 3.9 13.7 - - + -
1218B LEU* 3.6 26.0 - - + -
1221B LEU* 5.9 1.3 - - + -
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Residues in contact with LEU1189 (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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1185B LEU* 3.3 33.8 + - + +
1186B ASN* 3.3 10.7 + - - +
1187B LYS 3.2 0.6 - - - -
1188B PHE* 1.3 85.2 - - + +
1190B THR* 1.3 64.1 + - + +
1191B THR 3.2 1.1 + - - -
1192B ALA* 3.5 18.2 + - - +
1195B LYS* 5.1 5.4 - - - +
1198B TRP* 4.7 2.0 - - - -
1218B LEU* 3.9 27.8 - - + -
1223B ASP* 4.4 13.5 - - - +
1226B PHE* 4.3 27.9 - - + -
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Residues in contact with THR1190 (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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1186B ASN* 3.0 32.5 + - - +
1187B LYS* 3.0 17.7 + - - +
1189B LEU* 1.3 76.2 - - + +
1191B THR* 1.3 63.5 + - - +
1192B ALA 3.3 7.0 + - - +
1195B LYS* 6.1 5.4 - - - +
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Residues in contact with THR1191 (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 5.6 1.8 - - - +
1163B ARG 5.4 0.2 - - - -
1164B SER* 3.4 35.9 + - - +
1167B VAL* 3.7 19.7 - - + +
1187B LYS* 2.7 32.9 + - - +
1188B PHE 3.6 8.7 - - - -
1189B LEU 3.2 0.4 - - - -
1190B THR* 1.3 77.2 + - - +
1192B ALA* 1.3 63.9 + - - +
1193B LYS* 3.4 4.2 + - - +
1198B TRP* 3.5 17.7 - - + -
1199B GLU 5.9 0.2 + - - -
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Residues in contact with ALA1192 (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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1189B LEU 3.5 10.4 + - - +
1190B THR* 3.3 9.7 - - - +
1191B THR* 1.3 79.5 - - - +
1193B LYS* 1.3 62.1 + - - +
1194B ASP 3.7 0.7 + - - -
1195B LYS* 3.6 25.8 + - - +
1196B ASN 4.3 0.7 - - - +
1197B ARG 3.4 11.4 - - - +
1198B TRP* 3.5 42.1 - - + +
1226B PHE* 4.6 1.1 - - + -
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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