Contacts of the helix formed by residues 1166 - 1177 (chain C) in PDB entry 7KHI
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 ASP1166 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1138C VAL* 3.4 24.1 - - + +
1164C PHE* 3.2 20.7 - - + -
1165C SER* 1.3 95.9 + - - +
1167C GLU* 1.3 68.6 + - - +
1169C VAL* 3.1 16.8 - - - +
1170C MET* 3.1 16.5 + - - +
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Residues in contact with GLU1167 (chain C).
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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1164C PHE* 3.2 18.1 - - + -
1166C ASP* 1.3 77.5 - - - +
1168C GLU* 1.3 77.6 + - + +
1170C MET* 3.0 8.3 + - - +
1171C ARG* 2.8 56.5 + - - +
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Residues in contact with GLU1168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5C TYR* 6.0 1.2 - - - -
8C LYS* 4.5 21.3 + - + +
1163C THR* 3.6 28.2 - - - +
1164C PHE* 4.0 29.7 - - + +
1167C GLU* 1.3 87.4 - - + +
1169C VAL* 1.3 57.5 + - - +
1171C ARG* 3.4 17.9 + - - +
1172C LEU* 2.9 28.6 + - - +
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Residues in contact with VAL1169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1138C VAL* 3.8 12.3 - - + +
1141C LEU* 5.3 2.9 - - + -
1142C ARG* 3.9 28.3 - - + +
1145C ILE* 4.6 15.6 - - + +
1160C ASP* 5.6 6.5 - - - +
1163C THR* 5.9 0.4 + - - -
1164C PHE 4.1 7.7 + - - +
1165C SER 3.0 29.4 - - - +
1166C ASP* 3.1 13.8 - - - +
1168C GLU* 1.3 78.9 - - - +
1170C MET* 1.3 65.6 + - + +
1172C LEU* 3.2 12.8 + - + +
1173C ALA* 2.9 28.1 + - - +
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Residues in contact with MET1170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132C LEU* 5.6 7.5 - - + +
1137C GLU 5.3 0.2 - - - -
1138C VAL* 3.6 44.0 - - + +
1141C LEU* 3.6 26.9 - - + -
1166C ASP 3.3 16.4 - - - +
1167C GLU* 3.0 5.9 + - - +
1169C VAL* 1.3 84.4 - - + +
1171C ARG* 1.3 57.1 + - - +
1173C ALA* 3.3 4.9 + - - +
1174C GLU* 2.9 33.2 + - - +
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Residues in contact with ARG1171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5C TYR 5.1 0.6 + - - -
8C LYS* 5.0 5.8 + - - +
9C LYS* 3.3 53.1 - - - +
775C GLU* 4.7 18.7 + - - -
1167C GLU* 2.8 45.8 + - - +
1168C GLU* 3.7 23.6 + - - +
1169C VAL 3.3 0.2 - - - -
1170C MET* 1.3 76.8 - - + +
1172C LEU* 1.3 61.6 + - - +
1174C GLU* 3.1 9.1 + - + +
1175C ASN* 2.8 34.8 + - - +
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Residues in contact with LEU1172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C LYS 4.3 8.5 + - - +
9C LYS 3.9 8.7 + - - +
10C ARG* 3.6 11.9 - - - -
11C ILE* 3.4 40.4 - - + +
1145C ILE* 4.4 14.6 - - + -
1149C TYR* 4.2 22.9 - - + +
1159C VAL* 6.4 0.4 - - + -
1168C GLU 2.9 14.6 + - - +
1169C VAL* 3.2 14.8 + - + +
1171C ARG* 1.3 75.8 - - - +
1173C ALA* 1.3 58.7 + - - +
1175C ASN* 3.3 1.6 + - - -
1176C LEU* 2.9 49.3 + - + +
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Residues in contact with ALA1173 (chain C).
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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1128C ILE* 4.4 13.7 - - + +
1132C LEU* 4.5 9.9 - - + +
1141C LEU* 4.3 23.8 - - + -
1145C ILE* 4.3 16.3 - - + +
1169C VAL 2.9 13.5 + - - +
1170C MET* 3.6 9.0 - - - +
1172C LEU* 1.3 75.0 - - - +
1174C GLU* 1.3 65.6 + - - +
1176C LEU* 3.6 4.9 - - - +
1177C ARG* 2.9 27.2 + - - +
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Residues in contact with GLU1174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1132C LEU* 4.1 11.9 - - - +
1170C MET* 2.9 19.1 + - - +
1171C ARG* 3.1 13.2 + - + +
1173C ALA* 1.3 75.5 - - - +
1175C ASN* 1.3 63.9 + - - +
1177C ARG* 2.9 53.2 + - - +
1178C LYS* 5.7 0.5 - - - +
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Residues in contact with ASN1175 (chain C).
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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9C LYS* 2.6 37.4 + - - +
10C ARG* 3.8 36.6 + - + +
697C LYS* 5.1 1.6 - - - -
791C LEU* 4.8 11.4 - - + +
1171C ARG* 2.8 25.5 + - - +
1172C LEU 3.8 2.7 - - - +
1174C GLU* 1.3 82.7 - - - +
1176C LEU* 1.3 60.8 + - - +
1177C ARG 3.5 0.5 + - - -
1178C LYS* 4.0 13.7 + - - +
1179C GLY 5.3 0.2 - - - +
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Residues in contact with LEU1176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10C ARG* 3.5 29.8 - - + +
11C ILE 4.0 4.9 - - - +
1125C GLY* 3.9 6.9 - - - -
1128C ILE* 4.8 16.5 - - + +
1145C ILE* 5.0 5.6 - - + -
1149C TYR* 3.5 25.1 - - + +
1172C LEU* 2.9 35.0 + - + +
1173C ALA* 3.2 4.9 + - - +
1175C ASN* 1.3 74.0 - - - +
1177C ARG* 1.3 64.1 + - - +
1178C LYS 3.0 3.1 - - - -
1179C GLY* 2.9 19.5 + - - +
1180C MET* 3.8 22.7 + - + +
1181C PRO* 3.6 25.4 - - + -
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Residues in contact with ARG1177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1122C LYS* 5.2 3.5 + - - -
1125C GLY 3.2 24.4 - - - +
1126C ASP* 5.0 0.2 - - - -
1128C ILE* 4.5 6.3 - - + -
1129C ASN* 3.3 42.1 + - + +
1132C LEU* 3.9 28.7 - - + +
1133C LYS* 5.6 3.6 - - - +
1173C ALA 2.9 12.1 + - - +
1174C GLU* 2.9 53.1 + - - +
1176C LEU* 1.3 77.9 - - - +
1178C LYS* 1.3 71.7 + - + +
1179C GLY 3.1 2.8 + - - -
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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