Contacts of the helix formed by residues 164 - 178 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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155A LEU* 5.7 0.5 - - - +
156A GLU 4.0 13.4 - - - +
157A CYS* 3.7 4.6 - - - +
162A GLN 3.2 1.6 + - - -
163A ARG* 1.3 76.9 - - - +
165A LEU* 1.3 62.7 + - - +
166A LYS 3.6 1.1 - - - -
167A THR* 3.6 16.2 - - - +
168A VAL* 3.4 23.2 + - - +
1207A CL 4.6 7.0 - - - -
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Residues in contact with LEU 165 (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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19A LEU* 3.4 44.4 - - + +
22A SER* 3.5 28.5 - - - +
23A TYR* 3.5 26.9 - - + +
157A CYS* 4.1 7.0 - - - -
158A SER 4.4 1.6 - - - +
159A ALA* 4.7 5.8 - - - -
162A GLN* 3.0 36.7 + - + +
163A ARG 3.1 2.7 + - - +
164A GLY* 1.3 73.3 - - - +
166A LYS* 1.3 67.3 + - - +
168A VAL* 3.2 19.5 + - - +
169A PHE* 3.6 11.6 - - + -
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Residues in contact with LYS 166 (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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23A TYR* 4.2 20.6 - - + -
162A GLN 4.5 1.2 + - - -
164A GLY 3.6 0.2 - - - -
165A LEU* 1.3 77.6 - - - +
167A THR* 1.3 51.6 + - - +
169A PHE* 3.1 5.7 + - - +
170A ASP* 2.5 74.3 + - - +
11I ILE 2.6 28.6 + - - -
12I SER 3.7 18.6 - - - -
13I ALA* 3.9 11.4 - - + +
14I PRO* 5.6 0.4 - - + -
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Residues in contact with THR 167 (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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155A LEU* 3.8 24.2 - - + -
164A GLY* 3.6 18.0 - - - +
166A LYS* 1.3 74.7 - - - +
168A VAL* 1.3 65.9 + - - +
170A ASP* 4.1 9.0 + - - -
171A GLU* 2.9 41.6 + - + +
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Residues in contact with VAL 168 (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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19A LEU* 4.8 3.1 - - + -
79A LEU* 3.9 29.2 - - + -
111A LEU* 3.8 5.2 - - - +
113A VAL* 3.9 19.5 - - + -
155A LEU* 3.7 29.8 - - + -
157A CYS* 4.1 23.1 - - + -
164A GLY 3.4 14.1 + - - +
165A LEU 3.2 9.9 + - - +
167A THR* 1.3 76.9 - - - +
169A PHE* 1.3 70.7 + - + +
172A ALA* 3.0 25.6 + - - +
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Residues in contact with PHE 169 (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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6A CYS* 5.1 1.6 - - - -
19A LEU* 4.0 31.0 - - + -
20A LEU* 3.5 33.9 - - + -
23A TYR* 3.4 67.8 - + + +
53A LEU* 4.6 7.6 - - + +
55A LEU* 3.7 17.0 - - + -
79A LEU* 4.0 15.7 - - + -
165A LEU* 3.6 15.5 - - + -
166A LYS 3.1 2.9 + - - +
168A VAL* 1.3 79.9 - - + +
170A ASP* 1.3 61.6 + - - +
172A ALA* 3.6 8.1 - - + +
173A ILE* 2.9 36.7 + - - +
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Residues in contact with ASP 170 (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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23A TYR* 4.6 4.5 + - - -
166A LYS* 2.5 63.8 + - - +
167A THR* 3.8 9.3 + - + +
169A PHE* 1.3 75.3 - - - +
171A GLU* 1.3 58.1 + - + +
173A ILE* 3.3 3.9 + - - +
174A ARG* 2.9 34.5 + - + +
11I ILE* 3.2 34.1 - - + +
12I SER 4.6 0.9 - - - +
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Residues in contact with GLU 171 (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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111A LEU* 3.8 7.5 - - + +
153A LYS* 3.6 26.0 - - + +
155A LEU* 3.7 28.1 - - + +
167A THR* 2.9 34.8 + - + +
170A ASP* 1.3 73.9 - - + +
172A ALA* 1.3 61.8 + - - +
174A ARG* 3.7 12.6 - - - +
175A ALA* 2.8 31.2 + - - +
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Residues in contact with ALA 172 (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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4A ILE* 5.3 1.3 - - + -
6A CYS* 4.8 7.6 - - + -
53A LEU* 6.3 1.8 - - + -
77A VAL* 4.2 14.2 - - + +
79A LEU* 4.2 20.6 - - + -
111A LEU* 3.5 12.5 - - - +
168A VAL 3.0 18.7 + - - +
169A PHE* 3.6 11.9 - - + +
170A ASP 3.4 0.2 - - - -
171A GLU* 1.3 75.3 - - - +
173A ILE* 1.3 64.9 + - + +
175A ALA* 3.3 10.9 + - - +
176A VAL* 3.4 18.1 + - - +
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Residues in contact with ILE 173 (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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4A ILE* 3.9 26.0 - - + -
23A TYR* 4.5 3.6 - - - +
44A VAL* 4.0 19.1 - - + -
46A VAL* 4.0 24.9 - - + -
51A VAL* 5.8 1.6 - - + -
53A LEU* 4.5 20.6 - - + -
169A PHE 2.9 24.6 + - - +
170A ASP 3.5 4.0 - - - +
172A ALA* 1.3 76.8 - - + +
174A ARG* 1.3 60.4 + - + +
176A VAL* 3.0 4.3 + - - +
177A LEU* 2.9 35.1 + - + +
11I ILE* 3.9 33.0 - - + -
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Residues in contact with ARG 174 (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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46A VAL* 3.8 12.9 - - - +
47A ASP* 2.9 40.4 + - - -
170A ASP 2.9 27.7 + - - +
171A GLU* 3.2 15.0 + - - +
173A ILE* 1.3 72.7 - - - +
175A ALA* 1.3 57.4 + - - +
177A LEU* 6.3 0.4 - - - +
178A GLY* 2.8 66.2 + - - +
10I GLU* 4.7 6.3 - - - +
11I ILE* 3.9 25.6 - - + +
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Residues in contact with ALA 175 (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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77A VAL* 4.6 6.3 - - + -
109A PRO* 4.5 14.8 - - + +
111A LEU* 4.0 20.9 - - + -
152A VAL* 4.2 13.5 - - + -
171A GLU 2.8 18.8 + - - +
172A ALA 3.4 7.9 - - - +
173A ILE 3.1 0.2 - - - -
174A ARG* 1.3 78.5 - - - +
176A VAL* 1.3 59.7 + - - +
178A GLY 5.0 0.2 + - - -
130D ARG* 5.9 1.2 - - - -
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Residues in contact with VAL 176 (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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4A ILE* 4.0 14.8 - - + -
76A ASP* 3.4 37.2 - - + +
77A VAL* 3.6 24.5 - - + -
109A PRO* 5.0 0.9 - - + -
172A ALA 3.4 7.4 + - - +
173A ILE 3.0 6.3 + - - +
175A ALA* 1.3 80.6 - - - +
177A LEU* 1.3 67.0 + - + +
178A GLY 3.6 0.2 - - - -
130D ARG* 4.3 10.7 - - - +
133D LYS* 3.6 52.0 - - + +
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Residues in contact with LEU 177 (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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2A GLN* 3.5 34.5 + - + +
3A ALA 5.5 0.4 - - - +
4A ILE* 3.9 28.0 - - + -
46A VAL* 4.9 8.7 - - + -
51A VAL* 3.7 32.3 - - + -
173A ILE* 2.9 19.9 + - + +
174A ARG* 6.3 0.2 - - - +
176A VAL* 1.3 89.6 - - + +
178A GLY* 1.3 63.2 + - - +
130D ARG* 3.8 15.9 + - - +
133D LYS* 4.5 13.7 - - + -
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Residues in contact with GLY 178 (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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47A ASP* 5.5 0.3 - - - +
173A ILE* 5.8 0.2 - - - +
174A ARG* 2.8 70.8 + - - -
176A VAL 3.6 1.2 - - - -
177A LEU* 1.3 79.6 - - - +
130D ARG* 3.8 28.3 - - - +
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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