Contacts of the strand formed by residues 1161 - 1174 (chain A) in PDB entry 4UHW
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 TYR1161 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1015A PRO* 3.7 0.5 - - - +
1016A VAL* 3.0 62.8 + - + +
1090A VAL* 4.1 0.9 - - - +
1093A ASP* 2.7 29.0 + - - -
1145A TYR* 4.5 6.1 - + - -
1159A PHE* 3.5 2.4 - - - +
1160A GLU* 1.3 88.5 - - + +
1162A PHE* 1.3 79.9 + - - +
1163A VAL* 4.2 3.1 - - + -
1258A ASN* 5.8 4.5 - - - +
1260A ASN* 4.7 4.5 - - - +
1261A THR* 3.5 26.7 - - + -
1266A LYS* 3.9 32.3 - - + -
1267A GLY* 2.9 29.2 + - - -
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Residues in contact with PHE1162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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964A TYR* 3.7 15.3 - - - -
966A GLN* 3.8 32.5 - - - -
967A GLU 4.7 1.8 - - - -
968A ILE* 3.5 31.2 - - + -
1013A LYS* 3.6 24.7 - - + -
1014A PHE 3.5 3.4 - - - +
1015A PRO* 3.5 30.3 - - + -
1159A PHE* 4.0 6.3 - - + -
1160A GLU 5.4 0.2 - - - -
1161A TYR* 1.3 88.7 - - - +
1163A VAL* 1.3 58.6 + - - +
1164A TYR* 3.6 31.9 - - + +
1266A LYS* 2.7 32.5 + - - +
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Residues in contact with VAL1163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1012A LEU* 3.8 2.4 - - + +
1013A LYS* 3.5 2.9 - - - -
1014A PHE* 2.7 47.9 + - + +
1016A VAL* 4.2 8.1 - - + -
1161A TYR* 4.2 8.9 - - + -
1162A PHE* 1.3 73.0 - - - +
1164A TYR* 1.3 66.2 + - - +
1189A MET* 4.3 12.3 - - + -
1190A ASP 3.6 18.2 - - - +
1191A VAL* 5.5 0.2 - - - -
1266A LYS* 4.2 12.3 - - + -
1267A GLY 3.8 23.3 - - - +
1268A LEU* 4.6 6.3 - - + -
1271A SER* 3.7 29.2 - - - +
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Residues in contact with TYR1164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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968A ILE* 4.1 7.3 - - - +
969A ASN 3.4 29.0 + - - -
970A ALA* 4.1 8.2 - - + +
972A ASN* 4.0 13.9 - - + +
973A LEU* 3.8 36.6 - - + +
976A CYS* 3.8 1.6 - - - -
1012A LEU* 3.3 14.6 - - - +
1013A LYS* 3.6 29.5 - - + +
1162A PHE* 3.6 38.4 - + + +
1163A VAL* 1.3 77.0 - - - +
1165A GLY* 1.3 58.8 + - - +
1189A MET* 3.7 4.9 - - - +
1190A ASP* 2.8 56.1 + - + +
1266A LYS* 4.4 3.8 - - - -
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Residues in contact with GLY1165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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973A LEU* 4.4 2.9 - - - +
976A CYS* 3.6 11.4 - - - +
1011A PRO* 3.5 2.8 - - - +
1012A LEU* 2.7 50.1 + - - +
1164A TYR* 1.3 76.6 - - - +
1166A ALA* 1.3 60.4 + - - +
1188A VAL 3.3 12.6 - - - -
1189A MET* 4.2 4.0 - - - -
1275A LEU* 4.9 0.2 - - - -
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Residues in contact with ALA1166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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976A CYS* 3.5 28.2 - - - +
977A TRP* 4.1 14.6 - - + +
980A CYS* 4.0 11.2 - - + -
1009A MET* 5.1 0.4 - - + -
1010A VAL 3.4 12.6 - - - +
1011A PRO* 4.1 4.9 - - + -
1012A LEU 4.5 0.4 - - - +
1165A GLY* 1.3 74.8 - - - +
1167A ALA* 1.3 65.1 + - - +
1187A ILE* 3.6 3.6 - - - +
1188A VAL 3.0 29.0 + - - +
1275A LEU* 4.3 4.9 - - - +
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Residues in contact with ALA1167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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980A CYS* 3.9 1.3 - - - -
1009A MET* 3.3 5.9 - - - +
1010A VAL* 2.9 32.4 + - + +
1166A ALA* 1.3 79.1 - - - +
1168A CYS* 1.3 61.2 + - - +
1185A THR* 5.2 0.9 - - + -
1186A ASP 3.2 10.3 - - - +
1187A ILE* 4.1 11.9 - - + -
1208A PHE* 5.4 0.2 - - + -
1275A LEU* 4.0 30.1 - - + +
1278A SER* 3.8 17.7 - - - +
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Residues in contact with CYS1168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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980A CYS* 3.7 8.3 - - - -
984A SER* 3.8 21.3 - - - -
986A TYR* 4.0 12.1 - - - -
989A ARG* 3.9 12.3 - - - -
1007A LEU* 3.8 22.0 - - - -
1008A ALA 3.3 11.7 - - - -
1009A MET* 3.7 18.2 - - + -
1167A ALA* 1.3 74.8 - - - +
1169A SER* 1.3 65.8 + - - +
1185A THR* 3.2 4.5 - - - +
1186A ASP* 2.8 34.0 + - + +
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Residues in contact with SER1169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1007A LEU* 3.4 5.7 - - - +
1008A ALA 3.0 29.9 + - - -
1168A CYS* 1.3 72.6 + - - +
1170A GLU* 1.3 62.0 + - - +
1171A VAL* 5.6 0.4 - - - -
1184A ARG 3.4 4.7 - - - -
1185A THR* 2.6 24.8 + - - +
1278A SER* 2.8 42.0 + - - -
1279A VAL* 3.8 13.4 - - - +
1282A ALA* 3.3 7.2 - - - +
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Residues in contact with GLU1170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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989A ARG* 2.8 41.6 + - - +
992A ALA* 5.8 1.9 - - - +
993A VAL* 3.5 23.7 - - + +
1005A LYS* 3.8 15.4 + - + +
1006A GLY 3.3 11.4 - - - +
1007A LEU* 3.5 7.9 - - + -
1169A SER* 1.3 73.2 - - - +
1171A VAL* 1.3 65.2 + - - +
1182A ASN* 3.7 1.6 - - - +
1183A ILE* 2.8 57.9 + - + +
1184A ARG* 2.9 11.8 + - - +
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Residues in contact with VAL1171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1005A LYS* 3.2 7.4 - - - +
1006A GLY 3.0 32.5 + - - +
1169A SER* 5.6 0.2 - - - -
1170A GLU* 1.3 80.3 - - - +
1172A GLU* 1.3 58.9 + - - +
1173A ILE* 4.5 8.7 - - + -
1180A HIS* 4.2 3.8 - - + -
1181A LYS 3.2 9.0 - - - +
1182A ASN* 3.4 25.4 - - - +
1183A ILE* 3.4 7.8 - - - +
1279A VAL* 4.1 13.9 - - + -
1282A ALA* 3.6 20.0 - - + +
1283A ILE* 3.6 39.9 - - + +
1286A ALA* 4.6 0.4 - - + -
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Residues in contact with GLU1172 (chain A).
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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551A SER* 5.4 1.2 - - - -
556A LEU* 3.4 31.9 - - + +
996A PHE* 3.3 26.0 - - + -
1003A LYS* 3.7 13.0 - - + +
1004A LYS 3.3 12.8 - - - +
1005A LYS* 3.9 17.0 + - + -
1171A VAL* 1.3 74.8 - - - +
1173A ILE* 1.3 70.3 + - - +
1180A HIS* 3.3 2.5 - - - -
1181A LYS* 3.0 33.9 + - + +
1183A ILE* 3.5 15.3 - - + +
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Residues in contact with ILE1173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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556A LEU* 4.4 1.1 - - - -
1003A LYS* 3.3 13.9 - - - +
1004A LYS* 2.8 33.0 + - + +
1171A VAL* 4.5 5.8 - - + -
1172A GLU* 1.3 76.5 - - - +
1174A ASP* 1.3 60.9 + - - +
1175A CYS* 4.0 13.7 - - - +
1179A ASP 3.4 8.7 - - - +
1180A HIS* 3.9 15.3 - - + -
1283A ILE* 4.2 16.8 - - + -
1286A ALA* 3.9 28.9 - - + +
1287A VAL* 4.0 16.8 - - + +
1311A ILE* 4.0 10.3 - - + -
1315A CYS* 3.9 27.6 - - - -
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Residues in contact with ASP1174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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525A LYS* 3.4 19.2 + - - -
552A ALA* 5.7 0.3 - - - -
555A ASP* 3.4 16.9 - - - +
556A LEU* 4.2 5.1 - - + +
1002A TRP 3.9 2.1 - - - +
1003A LYS* 3.3 24.4 - - - +
1173A ILE* 1.3 71.6 - - - +
1175A CYS* 1.3 59.5 + - - +
1176A LEU* 3.0 22.5 + - - +
1177A THR* 3.2 28.8 + - - +
1178A GLY* 2.8 32.2 + - - -
1179A ASP* 3.0 17.7 + - + +
1311A ILE* 4.8 0.7 - - - +
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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