Contacts of the strand formed by residues 1156 - 1167 (chain A) in PDB entry 6O0Z
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 LYS1156 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1149A VAL 3.0 4.5 - - - +
1150A GLU* 3.3 2.3 - - - -
1151A LYS* 2.5 52.7 + - + +
1154A SER* 3.3 8.4 - - - -
1155A LYS* 1.3 77.3 - - - +
1157A LEU* 1.3 61.5 + - - +
1158A LYS* 3.3 3.5 + - + +
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Residues in contact with LEU1157 (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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1148A LYS* 4.0 37.4 + - + +
1149A VAL 3.6 6.1 - - - +
1150A GLU* 3.3 36.8 - - - +
1155A LYS 4.0 5.8 - - - +
1156A LYS* 1.3 71.2 - - - +
1158A LYS* 1.3 62.5 + - - +
1159A SER* 3.5 3.3 + - - -
1188A LYS* 5.6 5.6 - - + -
1189A GLU* 6.4 0.9 - - + -
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Residues in contact with LYS1158 (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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1148A LYS* 4.0 0.7 - - - -
1149A VAL* 3.2 29.0 + - + +
1151A LYS* 3.8 22.0 - - + -
1156A LYS* 3.3 6.6 + - + +
1157A LEU* 1.3 74.5 - - - +
1159A SER* 1.3 67.3 + - - +
1160A VAL* 4.3 0.3 - - - +
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Residues in contact with SER1159 (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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1146A VAL* 4.9 7.1 - - - +
1147A ALA 3.4 13.7 + - - -
1148A LYS* 3.8 15.0 - - - -
1157A LEU 3.5 4.0 + - - -
1158A LYS* 1.3 79.0 - - - +
1160A VAL* 1.3 65.5 + - - +
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Residues in contact with VAL1160 (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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1145A VAL 4.1 1.0 - - - +
1146A VAL* 3.6 2.9 - - - +
1147A ALA 2.7 47.0 + - - +
1149A VAL* 4.2 30.5 - - + +
1158A LYS 4.5 0.9 - - - +
1159A SER* 1.3 81.4 + - - +
1161A LYS* 1.3 70.4 + - - +
1162A GLU* 4.0 19.2 - - + +
1187A TYR* 4.5 15.2 - - + -
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Residues in contact with LYS1161 (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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1144A LEU* 3.9 30.1 - - + -
1145A VAL 3.7 5.4 - - - +
1146A VAL* 4.4 17.0 - - + +
1160A VAL* 1.3 74.8 - - - +
1162A GLU* 1.3 66.4 + - - +
1343A LEU* 3.4 45.7 + - + +
1344A ASP* 4.5 7.2 + - - -
1362A LEU* 3.2 25.6 + - + +
1363A SER 4.6 4.6 + - - -
1365A LEU* 3.5 17.6 + - + +
1366A GLY 4.3 6.9 + - - +
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Residues in contact with GLU1162 (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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1144A LEU* 3.5 7.1 - - - +
1145A VAL* 2.9 40.0 + - + +
1160A VAL* 4.0 19.6 - - + +
1161A LYS* 1.3 79.0 - - - +
1163A LEU* 1.3 80.9 + - - +
1164A LEU* 4.1 1.1 - - + -
1187A TYR* 3.6 28.0 - - + +
1339A THR* 5.5 2.3 + - - -
1343A LEU* 4.8 6.8 - - - +
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Residues in contact with LEU1163 (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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1142A SER* 3.9 24.2 - - - +
1143A VAL 3.8 10.1 - - - +
1144A LEU* 4.8 5.2 - - + +
1162A GLU* 1.3 92.5 + - - +
1164A LEU* 1.3 61.5 + - - +
1198A LEU* 4.2 21.8 - - + -
1204A PHE* 5.5 0.2 - - + -
1214A LEU* 4.7 14.6 - - + -
1216A SER 4.8 2.7 - - - +
1217A ALA* 3.7 34.7 - - + +
1339A THR* 4.7 13.6 + - - +
1342A VAL* 4.8 11.7 - - + -
1343A LEU* 4.3 23.5 - - + +
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Residues in contact with LEU1164 (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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1142A SER* 3.4 5.9 - - - -
1143A VAL* 3.1 39.7 + - + +
1145A VAL* 4.6 9.4 - - + -
1162A GLU* 4.1 0.9 - - + -
1163A LEU* 1.3 75.1 - - - +
1165A GLY* 1.3 83.9 + - - +
1166A ILE* 3.7 17.9 - - + -
1181A PHE* 5.3 0.9 - - + -
1182A LEU* 4.9 11.9 - - + -
1185A LYS* 4.3 27.1 - - + +
1187A TYR* 3.7 36.8 - - + +
1217A ALA* 4.5 2.5 - - - -
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Residues in contact with GLY1165 (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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1139A VAL* 3.8 12.8 - - - -
1141A TYR 4.0 2.2 - - - -
1142A SER* 4.2 0.7 - - - -
1164A LEU* 1.3 89.6 - - - +
1166A ILE* 1.3 63.0 + - - +
1167A THR* 4.0 2.7 + - - -
1170A GLU* 4.2 5.7 - - - +
1185A LYS* 5.4 0.3 + - - -
1217A ALA* 3.8 24.0 - - - +
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Residues in contact with ILE1166 (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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1139A VAL* 3.4 5.0 - - - +
1140A ALA* 2.9 25.8 + - - +
1141A TYR* 3.1 28.4 + - + +
1143A VAL* 4.2 22.9 - - + -
1164A LEU* 3.7 24.9 - - + +
1165A GLY* 1.3 72.1 - - - -
1167A THR* 1.3 72.8 + - - +
1170A GLU* 3.7 11.7 - - + +
1171A ARG* 3.6 21.8 - - + +
1174A PHE* 4.4 18.6 - - + -
1181A PHE* 3.9 22.4 - - + -
1182A LEU* 5.8 0.9 - - + -
1185A LYS* 5.7 0.2 - - - +
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Residues in contact with THR1167 (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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1105A PHE* 4.5 6.1 - - + +
1120A ILE* 6.0 0.4 - - + -
1137A PRO* 3.6 30.9 - - + +
1138A THR 3.4 20.6 - - - +
1139A VAL* 4.5 3.1 - - - +
1140A ALA 4.6 0.2 - - - -
1165A GLY 4.8 1.7 + - - -
1166A ILE* 1.3 76.8 - - - +
1168A ILE* 1.3 63.6 + - + +
1169A MET* 3.4 14.1 - - + +
1170A GLU* 2.8 32.0 + - - -
1171A ARG* 2.5 34.1 + - - +
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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