Contacts of the strand formed by residues 1165 - 1182 (chain B) in PDB entry 2QOM
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 ALA1165 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1229A TYR* 3.9 22.9 - - + +
1231A PHE* 6.2 2.2 - - + -
1160B HIS* 3.5 1.9 - - - -
1161B VAL* 2.9 24.5 + - + -
1162B THR* 3.0 23.4 + - + +
1163B GLU 3.5 0.4 + - - -
1164B ASP* 1.3 81.4 - - + +
1166B TRP* 1.3 65.3 + - - +
1211B GLY 3.3 11.9 - - - +
1212B LYS* 4.3 9.0 - - + -
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Residues in contact with TRP1166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1229A TYR* 3.4 7.0 - - - -
1158B ARG* 3.6 56.8 - - + +
1159B TYR 3.3 13.9 - - - +
1160B HIS* 4.0 14.4 - + + -
1161B VAL* 4.2 1.8 - - - +
1163B GLU 6.1 0.4 - - - -
1164B ASP 5.3 2.0 - - - -
1165B ALA* 1.3 79.4 - - - +
1167B ILE* 1.3 68.0 + - - +
1168B GLU* 3.6 23.8 - - + -
1209B ASP* 3.4 25.6 - - + -
1210B VAL* 3.4 6.2 - - - -
1211B GLY* 3.0 50.1 + - - -
1212B LYS* 5.3 0.2 - - - +
1213B SER* 5.5 3.1 + - - -
1222B THR* 3.9 28.2 + - + +
1224B ARG* 3.8 26.7 - - + -
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Residues in contact with ILE1167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1169A PRO* 6.0 1.8 - - + -
1206A THR* 3.1 35.7 - - + +
1207A GLY* 4.2 15.9 - - - +
1208A VAL* 4.5 9.9 - - + -
1229A TYR* 3.8 22.9 - - + +
1157B TYR 3.5 1.7 - - - +
1158B ARG* 3.6 0.3 - - - -
1159B TYR* 2.9 52.5 + - + +
1161B VAL* 4.1 5.2 - - + -
1166B TRP* 1.3 80.8 - - - +
1168B GLU* 1.3 61.6 - - - +
1169B PRO* 3.9 7.9 - - + +
1208B VAL* 5.0 5.6 - - + -
1209B ASP 3.5 6.1 - - - +
1210B VAL* 4.0 12.8 - - + -
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Residues in contact with GLU1168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1026B ASN* 5.9 0.3 - - - +
1033B ARG* 3.2 14.2 + - - -
1118B TYR* 3.7 19.3 + - + -
1157B TYR 3.4 14.6 - - - +
1158B ARG* 3.1 34.3 + - - +
1166B TRP* 3.6 18.6 - - + -
1167B ILE* 1.3 76.3 - - - +
1169B PRO* 1.3 69.3 - - - +
1170B GLN* 2.7 32.6 + - + +
1208B VAL* 4.3 2.2 - - - +
1209B ASP* 2.7 30.4 + - + +
1224B ARG* 3.7 9.2 + - - -
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Residues in contact with PRO1169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1167A ILE* 3.6 22.7 - - + -
1169A PRO* 5.3 10.5 - - + -
1208A VAL* 4.2 23.3 - - + -
1156B GLY* 3.2 4.5 - - - -
1157B TYR* 3.1 46.9 + - + +
1159B TYR* 6.0 0.9 - - + -
1167B ILE* 3.9 7.0 - - + +
1168B GLU* 1.3 86.4 - - - +
1170B GLN* 1.3 59.9 + - - +
1207B GLY 3.5 6.5 - - - +
1208B VAL* 4.3 4.7 - - + -
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Residues in contact with GLN1170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1167A ILE* 3.4 9.0 - - - +
1024B ASN* 4.8 4.9 + - - +
1026B ASN* 5.7 2.2 - - - +
1118B TYR* 3.3 20.5 + - - +
1154B GLU* 4.0 3.6 + - - +
1155B ALA 3.6 5.4 - - - -
1156B GLY* 4.3 0.2 - - - -
1168B GLU* 2.7 33.9 + - + +
1169B PRO* 1.3 78.6 - - - +
1171B ALA* 1.3 61.3 + - - +
1205B ARG* 3.1 34.5 + - - +
1206B THR* 3.4 2.9 - - - -
1207B GLY 2.7 37.4 + - - +
1208B VAL 5.4 0.2 - - - -
1209B ASP* 3.3 31.2 + - - +
1224B ARG* 3.9 3.6 - - - +
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Residues in contact with ALA1171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1159A TYR* 6.6 0.2 - - + -
1161A VAL* 4.4 24.5 - - + -
1167A ILE* 5.4 4.5 - - + -
1154B GLU* 3.3 4.3 - - - +
1155B ALA* 2.8 40.7 + - + +
1170B GLN* 1.3 77.5 - - - +
1172B GLU* 1.3 60.6 + - - +
1205B ARG* 3.3 11.2 - - - +
1206B THR* 4.7 0.7 - - + -
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Residues in contact with GLU1172 (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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1024B ASN* 3.3 31.8 + - - +
1122B ILE* 6.1 0.9 - - - +
1152B GLY* 5.2 0.9 - - - -
1153B ALA 3.1 17.0 + - - +
1154B GLU* 3.6 15.7 - - + +
1171B ALA* 1.3 76.7 - - - +
1173B LEU* 1.3 60.7 + - - +
1174B VAL* 3.4 26.6 - - + +
1203B ILE* 4.1 1.5 - - + +
1204B GLY* 3.5 2.0 - - - -
1205B ARG* 2.7 75.6 + - + +
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Residues in contact with LEU1173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1161A VAL* 6.3 2.7 - - + -
1162A THR* 6.2 4.5 - - + -
1151B ALA 4.2 0.5 - - - +
1152B GLY* 3.6 1.0 - - - -
1153B ALA* 2.9 37.3 + - + +
1172B GLU* 1.3 74.5 - - - +
1174B VAL* 1.3 65.2 + - - +
1175B TYR* 5.1 6.3 - - + +
1202B LEU* 3.4 36.8 - - + -
1203B ILE 3.5 7.9 - - - +
1204B GLY* 4.7 3.8 - - - -
1231B PHE* 6.2 0.4 - - + -
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Residues in contact with VAL1174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1122B ILE* 6.3 0.2 - - + -
1150B TYR* 3.7 31.4 - - + -
1151B ALA 3.5 10.1 - - - +
1152B GLY* 4.2 8.5 - - - -
1172B GLU* 3.4 30.1 - - + +
1173B LEU* 1.3 77.0 - - - +
1175B TYR* 1.3 64.0 + - - +
1201B PRO 4.1 0.5 - - - +
1202B LEU* 3.5 3.3 - - - +
1203B ILE* 2.7 60.1 + - + +
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Residues in contact with TYR1175 (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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1150B TYR* 3.7 3.4 - - - -
1151B ALA* 2.9 39.8 + - + +
1173B LEU* 4.2 8.9 - - + +
1174B VAL* 1.3 73.7 - - - +
1176B GLY* 1.3 64.5 - - - +
1177B SER* 5.9 2.2 - - - -
1200B ASN* 3.6 41.2 + - + +
1201B PRO 3.6 10.8 - - - -
1202B LEU* 4.2 27.4 - - + -
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Residues in contact with GLY1176 (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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1149B TRP 3.1 11.2 - - - -
1150B TYR* 3.4 18.5 - - - -
1175B TYR* 1.3 81.8 - - - +
1177B SER* 1.3 60.7 - - - -
1178B VAL 3.8 2.7 - - - -
1200B ASN* 3.0 30.2 - - - +
1201B PRO* 2.9 13.8 + - - -
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Residues in contact with SER1177 (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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1147B HIS* 4.9 2.1 + - - -
1148B SER* 3.6 2.6 - - - -
1149B TRP* 2.8 44.5 + - - +
1175B TYR* 5.9 2.5 - - - -
1176B GLY* 1.3 73.8 - - - -
1178B VAL* 1.3 63.9 + - - +
1179B SER* 3.7 1.6 + - - -
1199B TYR 3.7 0.4 - - - -
1200B ASN* 3.5 14.2 + - - -
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Residues in contact with VAL1178 (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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1146B THR* 4.8 1.8 - - + +
1147B HIS 3.7 10.3 - - - +
1148B SER* 3.6 11.7 - - - -
1150B TYR* 3.3 16.4 - - + +
1177B SER* 1.3 73.5 - - - +
1179B SER* 1.3 63.3 + - - +
1180B GLY* 3.8 8.1 - - - +
1198B ASP* 3.5 2.6 - - - +
1199B TYR* 2.9 72.1 + - + +
1201B PRO* 3.7 13.5 - - + -
1247B GLU* 3.2 33.2 - - + +
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Residues in contact with SER1179 (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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1146B THR* 2.3 27.6 + - - -
1147B HIS* 2.7 50.2 + - - -
1177B SER 3.7 2.5 + - - -
1178B VAL* 1.3 71.4 - - - +
1180B GLY* 1.3 56.1 - - - +
1196B ASP* 6.4 1.1 - - - -
1198B ASP* 2.8 29.4 - - - -
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Residues in contact with GLY1180 (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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1146B THR* 3.2 15.3 - - - -
1178B VAL* 3.7 7.2 - - - +
1179B SER* 1.3 76.7 - - - +
1181B LYS* 1.3 64.1 + - - +
1196B ASP* 3.4 10.6 - - - +
1197B LYS 2.9 31.7 + - - -
1198B ASP* 5.0 0.2 - - - +
1199B TYR* 4.0 10.3 - - - -
1240B VAL* 5.1 1.1 - - - -
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Residues in contact with LYS1181 (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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1144B TYR* 3.6 43.7 - - + -
1145B SER 3.9 16.8 + - - +
1146B THR* 5.2 3.6 - - - -
1180B GLY* 1.3 79.1 + - - +
1182B GLN* 1.3 61.4 + - - +
1194B MET* 3.6 35.9 + - + +
1196B ASP* 3.4 33.2 + - + +
1197B LYS* 3.9 3.3 + - - +
1240B VAL* 3.2 26.6 - - - +
1241B LEU* 3.2 18.7 + - + +
1243B ASP* 5.9 0.7 - - - +
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Residues in contact with GLN1182 (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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1181B LYS* 1.3 74.0 - - - +
1183B PHE* 1.3 75.8 + - - +
1194B MET* 3.5 6.9 - - - +
1195B LYS* 2.8 53.8 + - + +
1196B ASP 4.2 4.0 - - - +
1197B LYS* 3.5 29.6 - - + +
1239B THR* 3.4 39.1 + - - +
1241B LEU* 3.6 9.6 - - - -
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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