Contacts of the helix formed by residues 1177 - 1191 (chain B) in PDB entry 1BRW
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 ILE1177 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1055B THR* 6.2 0.2 - - + -
1175B ASN 4.2 1.0 + - - -
1176B SER* 1.3 70.5 - - - +
1178B PRO* 1.4 72.2 - - + +
1180B ILE* 4.6 2.2 - - - -
1181B ALA* 2.9 33.5 + - + +
1208B MET* 3.8 32.1 - - + +
1213B GLU* 4.2 9.4 - - + +
1216B ARG* 4.2 34.1 - - + +
1217B LEU* 3.7 28.3 - - + +
1220B VAL* 4.6 17.3 - - + -
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Residues in contact with PRO1178 (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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1045B ILE* 3.9 14.4 - - + -
1049B GLY* 4.6 3.8 - - - -
1050B MET* 3.9 36.1 - - + +
1055B THR* 3.7 31.0 - - + +
1058B LEU* 4.1 2.8 - - - +
1176B SER* 3.3 16.6 - - - +
1177B ILE* 1.4 98.3 - - + +
1179B LEU* 1.3 51.0 + - + +
1182B SER* 2.6 36.0 + - - -
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Residues in contact with LEU1179 (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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1038B MET* 6.3 0.9 - - + -
1042B ALA* 3.9 31.6 - - + +
1045B ILE* 4.2 26.7 - - + -
1058B LEU* 4.2 16.8 - - + -
1164B LEU* 4.7 17.0 - - + -
1168B ARG* 3.7 24.9 + - - +
1173B THR 3.5 21.5 - - - +
1176B SER* 3.1 24.7 + - - +
1178B PRO* 1.3 76.4 - - - +
1180B ILE* 1.3 60.4 + - - +
1182B SER* 3.4 3.2 + - - -
1183B SER* 3.1 29.8 + - - -
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Residues in contact with ILE1180 (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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1084B THR* 4.5 4.5 - - + +
1174B VAL 3.2 19.7 - - - +
1176B SER 2.9 22.3 + - - +
1177B ILE 3.8 2.7 - - - +
1179B LEU* 1.3 75.8 - - - +
1181B ALA* 1.3 66.8 + - - +
1183B SER* 3.2 1.9 + - - -
1184B ILE* 3.0 38.4 + - + +
1207B PHE* 3.8 21.1 - - + -
1208B MET* 3.9 26.0 - - + -
1217B LEU* 4.1 22.0 - - + -
1221B MET* 5.1 0.2 - - - -
5001B URA 3.0 32.8 - - + +
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Residues in contact with ALA1181 (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 THR* 4.1 17.0 - - + -
1059B THR* 4.7 0.7 - - - -
1177B ILE 2.9 18.6 + - - +
1180B ILE* 1.3 76.8 - - - +
1182B SER* 1.3 58.4 + - - +
1184B ILE* 3.9 0.5 - - - +
1185B MET* 2.9 36.4 + - - +
1217B LEU* 4.1 5.8 - - + -
1220B VAL* 4.2 11.7 - - + -
1221B MET* 3.8 29.8 - - + -
1224B ILE* 4.7 3.1 - - + -
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Residues in contact with SER1182 (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 THR* 4.2 3.8 - - - +
1058B LEU* 3.4 21.7 - - - +
1059B THR* 3.3 37.6 + - - +
1062B MET* 4.0 8.6 - - - +
1164B LEU* 6.0 0.5 - - - +
1178B PRO 2.6 22.8 + - - -
1179B LEU* 3.4 7.1 + - - +
1181B ALA* 1.3 78.6 - - - +
1183B SER* 1.3 63.6 + - - +
1186B SER* 3.0 27.9 + - - -
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Residues in contact with SER1183 (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 MET* 4.2 3.1 - - - -
1161B ASP* 2.8 25.5 + - - +
1165B TYR* 3.7 2.4 - - - -
1168B ARG* 3.6 16.1 + - - -
1179B LEU 3.1 21.8 + - - -
1180B ILE 3.2 4.2 + - - -
1182B SER* 1.3 77.0 + - - +
1184B ILE* 1.3 63.3 + - - +
1186B SER* 2.9 18.7 + - - -
1187B LYS* 3.3 23.6 + - - -
5001B URA 3.4 12.7 + - - -
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Residues in contact with ILE1184 (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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1082B HIS* 3.8 28.5 - - + +
1083B SER 3.4 24.0 - - - +
1084B THR* 3.8 22.2 - - + -
1180B ILE* 3.0 26.4 + - + +
1181B ALA 4.0 1.6 - - - +
1183B SER* 1.3 75.9 - - - +
1185B MET* 1.3 64.7 + - - +
1187B LYS* 3.0 18.0 + - - +
1188B LYS* 3.1 15.9 + - + +
1198B LEU* 4.0 17.3 - - + -
1221B MET* 4.2 10.3 - - - -
5001B URA 3.5 24.0 - - + +
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Residues in contact with MET1185 (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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1059B THR* 3.9 16.2 - - + +
1181B ALA 2.9 22.9 + - - +
1184B ILE* 1.3 70.9 - - - +
1186B SER* 1.3 60.9 + - - +
1188B LYS* 3.3 13.5 + - + +
1189B ILE* 2.9 39.8 + - + +
1196B ILE* 4.1 20.9 - - + -
1198B LEU* 4.5 14.6 - - - -
1221B MET* 3.8 35.0 - - + +
1224B ILE* 4.0 17.0 - - + -
1225B GLY* 3.7 31.2 - - - +
1232B THR* 4.5 3.6 - - + -
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Residues in contact with SER1186 (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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1059B THR* 3.7 22.9 - - - +
1062B MET* 3.6 22.5 - - - +
1063B VAL* 3.6 16.5 - - - +
1158B THR* 3.5 12.5 - - - +
1161B ASP* 4.1 3.3 - - - +
1182B SER 3.0 16.8 + - - -
1183B SER 2.9 17.2 + - - -
1185B MET* 1.3 76.0 - - - +
1187B LYS* 1.3 55.9 + - - +
1190B ALA* 3.1 29.5 + - - +
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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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1082B HIS* 4.2 16.2 + - - +
1109B MET* 3.3 38.8 - - + +
1110B SER 4.3 9.6 - - - +
1111B GLY* 4.8 2.0 - - - +
1153B GLN* 3.5 22.0 - - + +
1158B THR* 4.4 7.6 - - - +
1161B ASP* 3.0 28.0 + - - +
1165B TYR* 4.2 3.2 - - - -
1183B SER* 3.3 17.3 + - - +
1184B ILE 3.0 8.5 + - - +
1186B SER* 1.3 81.9 + - - +
1188B LYS* 1.3 69.4 + - - +
1190B ALA 3.4 0.3 + - - -
1191B ALA* 2.9 31.4 + - - +
5001B URA 3.0 27.8 + - - -
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Residues in contact with LYS1188 (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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1080B ASP* 2.9 40.1 + - - +
1081B LYS 3.5 4.4 + - - +
1082B HIS* 3.2 43.3 - - + -
1109B MET* 3.3 17.2 + - - +
1184B ILE* 3.1 24.7 + - + +
1185B MET* 3.7 13.0 - - + +
1187B LYS* 1.3 83.3 - - - +
1189B ILE* 1.3 62.3 + - - +
1191B ALA* 3.6 2.8 + - - +
1192B GLY 3.6 8.5 + - - -
1193B ALA* 4.3 2.6 + - - +
1196B ILE* 3.6 41.2 - - + +
1230B ARG* 3.4 13.1 + - - -
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Residues in contact with ILE1189 (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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1059B THR* 4.0 14.6 - - + -
1060B MET* 4.0 26.9 - - + -
1063B VAL* 4.0 15.5 - - + -
1068B MET* 3.4 30.3 - - + +
1185B MET* 2.9 28.8 + - + +
1188B LYS* 1.3 74.1 - - - +
1190B ALA* 1.3 66.4 + - - +
1191B ALA 3.2 0.7 + - - -
1192B GLY 3.2 9.9 + - - -
1196B ILE* 5.9 0.2 - - + -
1224B ILE* 4.6 10.8 - - + -
1228B VAL* 4.1 28.5 - - + -
1230B ARG* 3.3 30.6 + - + +
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Residues in contact with ALA1190 (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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1063B VAL* 4.4 10.8 - - + +
1067B GLU 4.2 12.1 - - - +
1068B MET* 4.0 10.3 - - - +
1069B LEU* 3.0 28.6 + - - +
1109B MET* 4.4 2.9 - - + -
1157B LEU* 3.7 15.2 - - + +
1158B THR* 3.9 19.1 - - + +
1186B SER 3.1 17.9 + - - +
1187B LYS 4.0 2.0 - - - +
1189B ILE* 1.3 80.5 - - - +
1191B ALA* 1.3 58.7 + - - +
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Residues in contact with ALA1191 (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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1069B LEU* 3.3 28.2 - - - +
1071B LEU* 3.8 9.9 - - - +
1080B ASP* 3.7 18.2 - - - +
1107B ALA 4.4 8.7 - - - +
1109B MET* 4.2 20.1 - - + +
1139B PHE* 4.5 8.0 - - + -
1157B LEU* 5.2 0.7 - - - -
1187B LYS 2.9 18.6 + - - +
1188B LYS 3.6 7.0 - - - +
1190B ALA* 1.3 77.0 - - - +
1192B GLY* 1.3 59.9 + - - +
1193B ALA 3.6 2.2 - - - +
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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