Contacts of the helix formed by residues 164 - 178 (chain C) in PDB entry 2OV2
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 GLY 164 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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117C LEU* 5.8 0.2 - - - -
155C LEU* 5.6 1.7 - - - +
156C GLU 3.8 14.8 - - - +
157C CYS* 3.5 4.9 - - - +
162C GLN 3.2 1.8 + - - -
163C ARG* 1.3 75.2 - - - +
165C LEU* 1.3 62.0 + - - +
166C LYS 3.7 0.7 - - - -
167C THR* 3.6 15.5 + - - -
168C VAL* 3.4 23.6 + - - +
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Residues in contact with LEU 165 (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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19C LEU* 3.3 45.1 - - + +
22C SER* 3.3 33.9 - - - +
23C TYR* 3.9 16.2 - - + +
157C CYS* 4.0 7.2 - - - -
158C SER 4.3 2.5 - - - +
159C ALA* 4.2 7.0 - - - -
162C GLN* 3.2 39.0 + - + +
163C ARG 3.3 1.0 - - - -
164C GLY* 1.3 73.8 - - - +
166C LYS* 1.3 67.3 + - - +
167C THR 3.2 1.1 - - - -
168C VAL* 3.2 19.0 + - - +
169C PHE* 3.4 17.9 - - + -
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Residues in contact with LYS 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR* 4.2 21.5 - - + -
162C GLN 4.7 1.2 + - - -
165C LEU* 1.3 79.0 - - - +
167C THR* 1.3 58.9 + - - +
169C PHE* 3.1 5.0 + - - +
170C ASP* 2.7 56.5 + - - +
11K ILE 2.7 28.0 + - - -
12K SER 3.7 19.7 - - - -
13K ALA* 3.9 10.5 - - + +
14K PRO* 5.8 0.7 - - + -
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Residues in contact with THR 167 (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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155C LEU* 3.8 23.6 - - + -
164C GLY* 3.6 16.2 + - - -
165C LEU 3.2 0.4 - - - -
166C LYS* 1.3 78.9 - - - +
168C VAL* 1.3 62.5 + - - +
170C ASP* 4.1 9.2 + - + -
171C GLU* 2.8 38.4 + - + +
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Residues in contact with VAL 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 4.9 2.9 - - + -
79C LEU* 3.7 30.1 - - + -
111C LEU* 3.9 5.9 - - - +
113C VAL* 4.1 22.4 - - + -
155C LEU* 3.6 23.1 - - + +
157C CYS* 3.9 25.4 - - + -
164C GLY 3.4 15.0 + - - +
165C LEU 3.2 9.5 + - - +
167C THR* 1.3 76.2 - - - +
169C PHE* 1.3 70.3 + - + +
172C ALA* 3.0 25.1 + - - +
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Residues in contact with PHE 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C CYS* 5.1 2.0 - - - -
19C LEU* 4.1 13.7 - - + -
20C LEU* 3.6 32.5 - - + -
23C TYR* 3.4 66.0 - + + +
53C LEU* 4.4 7.1 - - + +
55C LEU* 3.9 17.7 - - + -
79C LEU* 4.1 18.4 - - + -
165C LEU* 3.4 26.5 - - + -
166C LYS 3.1 2.6 + - - +
168C VAL* 1.3 84.1 - - + +
170C ASP* 1.3 66.5 + - - +
171C GLU 3.2 1.3 - - - -
172C ALA* 3.5 8.4 - - + +
173C ILE* 2.9 31.3 + - - +
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Residues in contact with ASP 170 (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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23C TYR* 4.8 3.5 + - - -
166C LYS* 2.7 60.2 + - - +
167C THR* 3.7 9.7 + - + +
169C PHE* 1.3 77.8 - - - +
171C GLU* 1.3 62.7 + - - +
173C ILE* 3.3 4.2 + - - +
174C ARG* 3.0 34.3 + - - +
11K ILE* 3.2 33.7 - - + +
12K SER 4.6 0.5 - - - +
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Residues in contact with GLU 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C LEU* 3.9 8.2 - - + +
153C LYS* 3.8 29.4 + - + +
155C LEU* 3.7 20.4 - - + -
167C THR* 2.8 37.4 + - + +
170C ASP* 1.3 76.6 - - + +
172C ALA* 1.3 60.3 + - - +
174C ARG* 3.4 25.6 + - - +
175C ALA* 2.9 31.0 + - - +
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Residues in contact with ALA 172 (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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4C ILE* 5.8 0.9 - - - -
6C CYS* 4.8 7.4 - - + -
53C LEU* 6.2 2.7 - - + -
77C VAL* 4.1 14.9 - - + +
79C LEU* 4.2 20.0 - - + -
111C LEU* 3.6 9.8 - - - +
168C VAL 3.0 19.1 + - - +
169C PHE* 3.3 11.9 + - + +
171C GLU* 1.3 76.1 - - - +
173C ILE* 1.3 63.2 + - + +
175C ALA* 3.3 17.4 + - - +
176C VAL* 3.4 14.4 - - - +
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Residues in contact with ILE 173 (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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4C ILE* 3.8 20.2 - - + -
23C TYR* 4.7 2.9 - - - +
44C VAL* 4.2 34.8 - - + -
46C VAL* 4.0 11.9 - - + -
51C VAL* 6.0 1.6 - - + -
53C LEU* 4.5 17.7 - - + -
169C PHE 2.9 24.1 + - - +
170C ASP 3.5 4.3 - - - +
171C GLU 3.2 0.2 - - - -
172C ALA* 1.3 78.2 - - + +
174C ARG* 1.3 58.3 + - - +
176C VAL* 3.1 5.7 + - - +
177C LEU* 2.8 49.6 + - + +
11K ILE* 3.9 25.4 - - + -
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Residues in contact with ARG 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170C ASP* 3.0 20.3 + - - +
171C GLU* 3.4 30.9 + - - +
173C ILE* 1.3 76.4 - - + +
175C ALA* 1.3 58.3 + - - +
176C VAL 3.1 0.2 - - - -
177C LEU* 5.1 0.2 - - - -
178C GLY* 2.8 50.0 + - - +
11K ILE* 4.2 13.9 - - + -
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Residues in contact with ALA 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C VAL* 4.3 6.5 - - + -
109C PRO* 4.1 18.7 - - + +
111C LEU* 4.1 21.3 - - + -
152C VAL* 4.5 19.2 - - + +
171C GLU 2.9 17.9 + - - +
172C ALA 3.4 7.6 - - - +
173C ILE 3.2 0.2 - - - -
174C ARG* 1.3 75.3 - - - +
176C VAL* 1.3 59.9 + - - +
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Residues in contact with VAL 176 (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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130B ARG* 4.4 11.8 + - - +
133B LYS* 3.7 47.7 - - + +
134B LEU 5.6 0.7 - - - +
4C ILE* 4.1 14.4 - - + -
76C ASP* 3.8 23.1 - - + +
77C VAL* 3.6 30.3 - - + -
109C PRO* 5.5 0.4 - - - -
172C ALA 3.4 15.0 - - - +
173C ILE 3.1 6.3 + - - +
175C ALA* 1.3 82.4 - - - +
177C LEU* 1.3 69.4 + - + +
178C GLY 3.7 0.4 - - - -
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Residues in contact with LEU 177 (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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130B ARG* 3.2 23.8 - - - +
133B LYS* 4.9 3.4 - - + -
2C GLN* 3.7 36.8 - - + +
4C ILE* 3.9 17.5 - - + -
46C VAL* 4.3 12.1 - - + -
51C VAL* 4.0 23.1 - - + -
173C ILE* 2.8 39.4 + - + +
176C VAL* 1.3 87.3 - - + +
178C GLY* 1.3 60.1 + - - +
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Residues in contact with GLY 178 (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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130B ARG* 3.9 25.6 + - - +
46C VAL* 6.1 0.9 - - - +
47C ASP* 5.6 1.7 - - - +
174C ARG* 2.8 49.8 + - - +
176C VAL 3.7 0.8 - - - -
177C LEU* 1.3 76.3 - - - +
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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