Contacts of the helix formed by residues 166 - 186 (chain A) in PDB entry 2O2C
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 VAL 166 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147A LEU* 4.8 1.8 - - + -
150A ALA* 4.1 26.2 - - + -
159A ILE* 2.9 29.2 + - + +
161A VAL* 3.7 34.8 - - + +
164A LYS* 3.9 5.6 - - + +
165A ASP* 1.3 72.7 - - - +
167A MET* 1.3 67.5 + - - +
168A PRO* 3.4 0.7 - - - -
169A ALA* 3.2 12.4 + - + +
170A VAL* 3.1 22.0 + - + +
322A TRP* 3.7 27.1 - - + +
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Residues in contact with MET 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ALA* 3.3 41.7 - - - +
153A ASN* 3.3 37.2 - - + +
156A ASN* 3.5 24.7 - - + +
157A ARG 3.7 19.1 - - - +
159A ILE* 4.5 3.1 - - - +
165A ASP* 3.1 20.0 + - - +
166A VAL* 1.3 79.8 - - + +
168A PRO* 1.4 64.8 - - + +
170A VAL* 3.2 14.6 + - + +
171A ASN* 2.9 37.0 + - - +
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Residues in contact with PRO 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ASP* 3.4 30.5 - - + +
166A VAL 3.7 0.2 - - - -
167A MET* 1.4 90.1 - - + +
169A ALA* 1.3 56.0 + - - +
171A ASN* 3.5 6.5 + - + +
172A LYS* 2.9 30.1 + - - +
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Residues in contact with ALA 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ASP 5.1 1.1 + - - +
166A VAL* 3.2 14.8 + - + +
168A PRO* 1.3 76.8 - - - +
170A VAL* 1.3 65.3 + - - +
172A LYS* 3.4 10.2 + - - +
173A VAL* 3.3 29.6 + - - +
320A TRP* 3.7 24.7 - - + +
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Residues in contact with VAL 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ALA 3.7 24.5 - - - +
151A LEU* 3.8 26.0 - - + +
166A VAL* 3.1 19.8 + - + +
167A MET* 3.6 19.5 - - + +
169A ALA* 1.3 76.3 - - - +
171A ASN* 1.3 58.4 + - - +
173A VAL* 3.4 5.2 + - - +
174A LEU* 3.1 35.2 + - + +
320A TRP* 3.7 15.3 - - + -
322A TRP* 3.9 26.2 - - + -
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Residues in contact with ASN 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A ASN 5.4 0.2 - - - +
154A ARG* 4.8 6.1 + - - -
156A ASN* 2.8 36.1 + - - +
167A MET* 2.9 33.0 + - - +
168A PRO* 4.0 5.7 - - + +
170A VAL* 1.3 73.8 - - - +
172A LYS* 1.3 58.8 + - - +
174A LEU* 3.4 20.1 + - - +
175A ASP* 3.0 28.8 + - - +
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Residues in contact with LYS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A PRO 2.9 18.2 + - - +
169A ALA* 3.6 10.5 - - - +
171A ASN* 1.3 75.3 - - - +
173A VAL* 1.3 60.9 + - + +
175A ASP* 3.3 7.7 + - - +
176A GLN* 3.0 27.0 + - + +
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Residues in contact with VAL 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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169A ALA 3.3 14.1 + - - +
170A VAL 3.9 6.1 - - - +
172A LYS* 1.3 77.0 - - + +
174A LEU* 1.3 60.1 + - - +
176A GLN* 3.1 16.2 + - - +
177A MET* 2.8 51.5 + - + +
317A PHE* 4.6 1.6 - - + -
318A GLN* 3.2 45.3 - - + +
320A TRP* 4.0 11.2 - - + -
332A ALA* 4.1 13.9 - - + +
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A LEU 4.1 12.1 - - - +
154A ARG* 3.9 24.5 - - - +
170A VAL* 3.1 23.9 + - + +
171A ASN* 3.7 19.1 - - - +
172A LYS 3.3 0.4 - - - -
173A VAL* 1.3 76.0 - - - +
175A ASP* 1.3 56.6 + - - +
177A MET* 3.4 18.7 + - - +
178A ARG* 3.0 27.4 + - - +
330A TRP 4.6 6.5 - - - +
331A SER* 5.9 0.9 - - - -
338A MET* 4.2 4.9 - - + +
343A TYR* 4.0 16.5 - - + +
346A PHE* 4.0 19.5 - - + -
347A VAL* 6.4 0.4 - - + -
350A LEU* 4.0 23.3 - - + -
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Residues in contact with ASP 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ASN 3.0 17.9 + - - +
172A LYS* 3.6 7.9 - - - +
173A VAL 3.2 0.2 - - - -
174A LEU* 1.3 75.4 - - - +
176A GLN* 1.3 60.8 + - - +
178A ARG* 3.0 39.7 + - - +
179A SER* 3.0 28.1 + - - -
343A TYR* 5.5 1.3 - - - -
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Residues in contact with GLN 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A LYS* 3.0 14.4 + - + +
173A VAL* 3.1 18.6 + - - +
175A ASP* 1.3 77.7 + - - +
177A MET* 1.3 57.9 + - - +
179A SER* 3.5 6.2 + - - -
180A PHE* 3.1 30.0 + - + +
313A GLU 5.2 0.2 + - - -
314A GLU 3.3 23.1 + - - +
316A MET 3.0 28.6 + - - +
317A PHE* 3.6 32.3 - - + -
318A GLN 4.6 0.5 + - - -
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Residues in contact with MET 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A VAL* 2.8 26.5 + - + +
174A LEU* 3.5 20.0 - - - +
176A GLN* 1.3 74.7 - - - +
178A ARG* 1.3 59.2 + - - +
181A SER* 2.9 35.2 + - - -
317A PHE* 3.8 23.6 - - + -
331A SER 3.4 21.8 - - - +
332A ALA* 3.9 18.2 - - - -
334A GLY 3.9 5.2 - - - +
335A LEU* 3.7 33.3 - - + +
338A MET* 3.5 24.7 - - + -
346A PHE* 4.2 8.3 - - + -
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Residues in contact with ARG 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU 3.0 14.5 + - - +
175A ASP* 3.0 44.9 + - - +
177A MET* 1.3 75.4 - - - +
179A SER* 1.3 81.1 + - - +
181A SER* 3.0 7.6 + - - -
182A GLU* 3.0 40.4 + - + +
338A MET* 3.7 6.2 - - - -
343A TYR* 3.6 43.7 - - + -
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Residues in contact with SER 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A ASP* 3.0 14.3 + - - -
176A GLN* 3.8 6.7 - - - -
178A ARG* 1.3 101.5 - - - +
180A PHE* 1.3 62.2 + - - +
182A GLU* 3.5 4.3 + - - +
183A LYS* 3.3 44.7 + - - +
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Residues in contact with PHE 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A GLN* 3.1 17.7 + - + +
177A MET 4.1 0.7 - - - +
179A SER* 1.3 75.1 - - - +
181A SER* 1.3 66.7 + - - +
183A LYS* 3.1 19.1 + - + +
184A VAL* 3.1 25.6 + - + +
189A TRP* 3.7 48.7 - + - -
253A LEU* 3.7 33.7 - - + -
297A VAL* 3.6 24.0 - - + -
315A ASN* 4.8 3.1 - - - -
317A PHE* 3.6 27.4 - + + -
335A LEU* 3.9 23.8 - - + -
339A ILE* 4.1 3.6 - - + -
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Residues in contact with SER 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A MET 2.9 26.5 + - - -
178A ARG* 3.0 9.9 + - - -
180A PHE* 1.3 73.4 - - - +
182A GLU* 1.3 58.6 + - - +
184A VAL* 3.3 3.1 + - - +
185A ARG* 3.0 37.3 + - - +
335A LEU* 4.6 2.0 - - - -
338A MET* 3.5 28.6 + - - +
339A ILE* 4.0 32.5 - - - +
343A TYR* 4.8 4.7 + - - +
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Residues in contact with GLU 182 (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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178A ARG* 3.0 36.7 + - + +
179A SER* 3.7 6.1 - - - +
181A SER* 1.3 78.3 + - - +
183A LYS* 1.3 51.4 + - + +
185A ARG* 4.2 20.1 + - - +
186A THR* 2.8 58.6 + - + +
342A GLY* 5.1 0.5 - - - -
343A TYR* 4.5 16.7 + - + +
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Residues in contact with LYS 183 (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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179A SER* 3.3 31.1 + - - +
180A PHE* 3.1 13.2 + - + +
182A GLU* 1.3 77.5 - - + +
184A VAL* 1.3 60.5 + - - +
186A THR* 3.9 4.7 - - - -
187A GLY 3.4 1.4 + - - -
188A GLU* 2.9 45.1 + - + +
189A TRP* 2.9 60.2 + - + +
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Residues in contact with VAL 184 (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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180A PHE* 3.1 45.0 + - + +
181A SER 3.7 7.4 - - - +
183A LYS* 1.3 77.8 - - - +
185A ARG* 1.3 61.3 + - - +
187A GLY* 3.4 12.3 + - - -
189A TRP* 4.2 15.2 - - + +
197A ILE* 4.0 34.9 + - + +
198A ARG* 5.6 0.9 + - - -
200A VAL* 4.5 3.1 - - + -
227A LEU* 4.4 12.5 - - + +
253A LEU* 4.1 8.3 - - + -
339A ILE* 3.9 25.6 - - + -
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Residues in contact with ARG 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A SER* 3.0 26.3 + - - +
182A GLU* 4.0 17.1 + - - +
184A VAL* 1.3 76.1 - - - +
186A THR* 1.3 61.9 + - + +
187A GLY 3.6 0.2 + - - -
198A ARG* 5.4 2.1 + - - -
222A PHE 5.5 1.2 + - - -
223A SER 5.8 0.4 - - - -
224A GLN* 2.9 56.8 + - - +
227A LEU* 3.9 7.9 - - + -
338A MET 4.1 8.5 - - - -
339A ILE* 3.0 28.5 + - + +
340A SER 2.9 27.3 + - - -
341A ILE 4.0 4.9 + - - -
342A GLY* 3.3 26.3 - - - +
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Residues in contact with THR 186 (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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182A GLU* 2.8 40.6 + - + +
183A LYS* 3.6 6.1 + - - -
185A ARG* 1.3 76.4 - - + +
187A GLY* 1.3 59.2 + - - +
188A GLU* 3.6 15.0 + - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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