Contacts of the helix formed by residues 166 - 186 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B LEU* 4.7 2.0 - - + -
150B ALA* 4.0 26.5 - - + -
159B ILE* 2.9 30.8 + - + +
161B VAL* 3.7 35.0 - - + +
164B LYS* 4.0 2.9 - - + +
165B ASP* 1.3 72.7 - - - +
167B MET* 1.3 69.5 + - - +
168B PRO* 3.4 1.3 - - - -
169B ALA* 3.2 11.3 + - + +
170B VAL* 3.1 21.2 + - + +
322B TRP* 3.7 26.2 - - + +
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Residues in contact with MET 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B ALA* 3.3 39.3 - - - +
153B ASN* 3.5 26.0 - - + +
156B ASN* 3.3 37.5 - - - +
157B ARG 3.6 19.7 - - - +
159B ILE* 4.4 5.2 - - - +
165B ASP* 3.1 20.2 + - - +
166B VAL* 1.3 80.2 - - + +
168B PRO* 1.4 65.0 - - + +
170B VAL* 3.3 15.2 + - + -
171B ASN* 3.0 34.2 + - - +
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Residues in contact with PRO 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B LYS* 4.1 14.8 - - - +
165B ASP* 3.4 30.7 - - + +
166B VAL 3.6 0.7 - - - -
167B MET* 1.4 88.0 - - + +
169B ALA* 1.3 54.7 + - - +
171B ASN* 3.9 3.9 - - + +
172B LYS* 3.0 30.8 + - - +
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Residues in contact with ALA 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B ASP 5.2 0.9 + - - +
166B VAL* 3.2 13.2 + - + +
167B MET 3.2 0.4 - - - -
168B PRO* 1.3 77.5 - - - +
170B VAL* 1.3 64.2 + - - +
172B LYS* 3.5 8.2 + - - +
173B VAL* 3.3 28.9 + - - +
320B TRP* 3.5 25.9 - - + +
322B TRP* 6.2 0.2 - - + -
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Residues in contact with VAL 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B ALA 3.7 25.4 - - - +
151B LEU* 3.8 25.8 - - + +
166B VAL* 3.1 17.3 + - + +
167B MET* 3.7 19.3 - - + +
169B ALA* 1.3 75.6 - - - +
171B ASN* 1.3 64.3 + - - +
173B VAL* 3.4 5.7 + - - +
174B LEU* 3.2 30.2 + - + +
320B TRP* 3.7 13.9 - - + -
322B TRP* 3.9 26.2 - - + -
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Residues in contact with ASN 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ASN 5.5 0.4 + - - -
154B ARG* 4.9 6.5 - - - +
156B ASN* 2.8 37.0 + - - +
167B MET* 3.0 22.5 + - - +
168B PRO* 4.1 4.4 - - + +
170B VAL* 1.3 79.0 - - - +
172B LYS* 1.3 59.6 + - - +
174B LEU* 3.4 23.4 + - - +
175B ASP* 3.0 28.4 + - - +
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Residues in contact with LYS 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B PRO 3.0 19.9 + - - +
169B ALA* 3.8 9.0 - - - +
170B VAL 3.3 0.2 - - - -
171B ASN* 1.3 75.8 - - - +
173B VAL* 1.3 60.5 + - + +
175B ASP* 3.4 8.0 + - + +
176B GLN* 3.0 27.1 + - + +
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Residues in contact with VAL 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B ALA 3.3 14.7 + - - +
170B VAL 3.8 7.2 - - - +
171B ASN 3.3 0.2 - - - -
172B LYS* 1.3 77.2 - - + +
174B LEU* 1.3 59.7 + - - +
176B GLN* 3.1 14.8 + - - +
177B MET* 2.8 39.5 + - + +
317B PHE* 4.6 4.0 - - + -
318B GLN* 3.3 44.2 - - + +
320B TRP* 4.0 10.8 - - + -
332B ALA* 4.0 19.7 - - + +
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Residues in contact with LEU 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B LEU 4.2 11.0 - - - +
154B ARG* 4.0 20.6 - - - +
170B VAL* 3.2 17.6 + - + +
171B ASN* 3.7 30.7 - - - +
172B LYS 3.4 0.4 - - - -
173B VAL* 1.3 74.8 - - - +
175B ASP* 1.3 57.3 + - - +
177B MET* 3.4 17.8 + - - +
178B ARG* 3.0 27.7 + - - +
330B TRP 4.7 6.7 - - - +
331B SER* 5.9 1.1 - - - -
338B MET* 4.4 4.8 - - + +
343B TYR* 4.0 17.9 - - + +
346B PHE* 4.0 19.5 - - + -
347B VAL* 6.5 0.4 - - + -
350B LEU* 4.0 22.2 - - + -
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Residues in contact with ASP 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ARG* 5.2 3.8 - - - +
143A ASN* 4.1 19.1 + - - +
171B ASN 3.0 17.7 + - - +
172B LYS* 3.6 7.9 - - + +
173B VAL 3.2 0.2 - - - -
174B LEU* 1.3 72.2 - - - +
176B GLN* 1.3 61.1 + - - +
178B ARG* 3.3 17.9 + - - +
179B SER* 3.0 29.6 + - - -
343B TYR* 5.6 0.9 - - - -
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Residues in contact with GLN 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B LYS* 3.0 14.5 + - + +
173B VAL* 3.4 19.6 - - - +
175B ASP* 1.3 77.1 + - - +
177B MET* 1.3 56.6 + - - +
179B SER* 3.5 6.2 + - - -
180B PHE* 3.0 31.1 + - + +
313B GLU 5.1 0.2 + - - -
314B GLU 3.3 22.2 + - - +
316B MET 3.1 27.6 + - - +
317B PHE* 3.7 30.0 - - + -
318B GLN* 4.7 0.5 + - - +
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Residues in contact with MET 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173B VAL* 2.8 27.6 + - + +
174B LEU* 3.5 20.4 - - - +
176B GLN* 1.3 74.4 - - - +
178B ARG* 1.3 54.2 + - - +
180B PHE* 4.1 0.2 - - - +
181B SER* 2.8 41.1 + - - -
317B PHE* 3.8 24.7 - - + -
331B SER 3.5 21.5 - - - +
332B ALA* 3.9 17.7 - - - -
334B GLY 3.9 3.8 - - - +
335B LEU* 3.7 35.0 - - + +
338B MET* 3.5 24.9 - - + -
346B PHE* 4.2 6.3 - - + -
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Residues in contact with ARG 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ARG* 2.8 49.2 - - - +
143A ASN* 3.8 20.6 - - - +
162A ASP* 3.3 11.1 + - - -
174B LEU 3.0 14.5 + - - +
175B ASP* 3.4 19.3 - - - +
177B MET* 1.3 75.6 - - - +
179B SER* 1.3 63.2 + - - +
181B SER* 3.0 17.9 + - - -
182B GLU* 3.0 26.3 + - + +
338B MET* 3.7 6.4 - - - -
343B TYR* 3.6 57.0 + - + +
344B GLU* 6.0 1.8 - - - +
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Residues in contact with SER 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLU* 2.7 33.7 + - - +
175B ASP* 3.0 14.5 + - - -
176B GLN* 3.8 6.5 - - - -
177B MET 3.4 0.2 - - - -
178B ARG* 1.3 80.9 - - - +
180B PHE* 1.3 60.9 + - - +
182B GLU* 3.5 5.8 + - - +
183B LYS* 3.2 35.6 + - - +
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Residues in contact with PHE 180 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176B GLN* 3.0 17.7 + - + +
177B MET 4.1 0.7 - - - +
179B SER* 1.3 74.7 + - - +
181B SER* 1.3 66.6 + - - +
183B LYS* 3.1 10.2 + - + +
184B VAL* 3.1 32.5 + - + +
189B TRP* 3.7 47.8 - + - -
253B LEU* 3.7 32.8 - - + -
297B VAL* 3.6 26.5 - - + -
315B ASN* 5.2 2.7 - - - -
317B PHE* 3.6 25.4 - + + -
335B LEU* 4.0 24.7 - - + -
339B ILE* 4.2 2.9 - - + -
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Residues in contact with SER 181 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177B MET 2.8 26.5 + - - -
178B ARG* 3.0 9.5 + - - -
180B PHE* 1.3 74.0 - - - +
182B GLU* 1.3 58.2 + - - +
184B VAL* 3.4 2.4 + - - +
185B ARG* 2.9 38.8 + - - +
335B LEU* 4.6 2.0 - - - -
338B MET* 3.4 32.4 - - - +
339B ILE* 4.0 27.6 - - - -
343B TYR* 4.8 4.5 + - - +
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Residues in contact with GLU 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136A GLU* 6.1 0.7 - - - +
162A ASP* 4.4 9.3 - - - +
163A GLY* 3.2 35.1 + - - -
178B ARG* 3.0 32.9 + - + +
179B SER* 3.7 6.1 - - - +
180B PHE 3.2 0.2 - - - -
181B SER* 1.3 77.0 + - - +
183B LYS* 1.3 54.2 + - - +
185B ARG* 4.5 14.5 + - - +
186B THR* 2.7 50.1 + - + +
342B GLY* 5.1 0.5 - - - -
343B TYR* 4.4 20.5 + - + +
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Residues in contact with LYS 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLU* 3.4 28.2 - - - +
179B SER* 3.2 27.6 + - - +
180B PHE* 3.1 11.7 + - + +
182B GLU* 1.3 75.1 - - - +
184B VAL* 1.3 60.6 + - - +
186B THR* 3.9 4.5 - - - -
187B GLY 3.4 1.4 + - - -
188B GLU* 2.9 43.1 + - - +
189B TRP* 2.9 59.5 + - + +
7004B GOL 4.9 6.6 + - - +
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Residues in contact with VAL 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B PHE* 3.1 43.9 + - + +
181B SER* 3.7 7.4 - - - +
183B LYS* 1.3 75.6 - - - +
185B ARG* 1.3 63.2 - - - +
187B GLY* 3.3 13.0 + - - -
189B TRP* 4.1 18.6 - - + +
197B ILE* 4.1 38.8 + - + +
198B ARG* 5.7 0.3 + - - -
200B VAL* 4.6 0.4 - - + -
227B LEU* 4.6 7.1 - - + +
253B LEU* 4.0 11.0 - - + -
339B ILE* 3.9 25.1 - - + -
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Residues in contact with ARG 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A GLY* 6.2 1.0 - - - -
181B SER* 2.9 26.8 + - - +
182B GLU* 4.0 17.5 + - - +
184B VAL* 1.3 75.6 - - - +
186B THR* 1.3 62.3 + - + +
187B GLY 3.2 0.7 + - - -
198B ARG* 5.3 2.3 + - - -
222B PHE 5.5 1.0 + - - -
223B SER 5.9 0.2 - - - -
224B GLN* 2.9 57.1 + - - +
227B LEU* 4.0 8.1 - - + -
338B MET 4.0 10.3 - - - -
339B ILE* 2.9 38.4 + - + +
340B SER 3.0 19.8 + - - -
341B ILE 4.1 4.8 + - - -
342B GLY* 3.3 25.3 - - - +
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Residues in contact with THR 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160A TYR* 3.7 63.4 + - + -
163A GLY* 4.2 7.9 - - - +
182B GLU* 2.7 38.6 + - + +
183B LYS* 3.5 5.5 + - - -
185B ARG* 1.3 76.9 - - + +
187B GLY* 1.3 59.9 + - - +
188B GLU* 3.6 14.7 + - - +
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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