Contacts of the helix formed by residues 166 - 183 (chain B) in PDB entry 2WNW
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 CYS 166 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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149B PHE* 5.6 2.0 - - - -
150B MET* 3.9 23.6 - - + +
162B LEU* 4.0 14.8 - - + -
163B ARG* 2.8 56.0 + - - +
165B GLU* 1.3 83.7 - - - +
167B TYR* 1.3 59.6 + - - +
168B ALA 3.3 2.2 - - - -
169B ASP* 3.2 12.4 + - + -
170B TRP* 2.8 30.8 + - - +
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Residues in contact with TYR 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B LEU* 3.5 42.9 + - + +
163B ARG 3.4 10.5 - - - -
164B ARG* 3.4 40.5 + - - +
165B GLU 3.6 0.2 - - - -
166B CYS* 1.3 78.4 - - - +
168B ALA* 1.3 63.5 + - - +
171B ALA* 3.0 20.6 + - - +
208B TYR* 4.3 7.7 - + - -
212B GLU* 3.3 52.4 + - + +
215B ALA* 5.1 3.4 - - + -
216B PHE* 3.4 27.3 - + + -
220B TYR* 3.7 38.6 - + + -
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Residues in contact with ALA 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165B GLU 5.2 3.3 + - - +
166B CYS 3.3 0.2 - - - -
167B TYR* 1.3 77.3 - - - +
169B ASP* 1.3 61.6 + - - +
171B ALA* 3.4 3.6 + - - +
172B ASP* 3.0 36.2 + - - +
220B TYR* 3.7 18.7 - - + -
224B ARG* 3.5 20.3 + - - +
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Residues in contact with ASP 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106B SER* 6.1 1.4 - - - -
109B LEU* 3.5 32.3 - - + +
150B MET* 3.6 9.9 - - + -
165B GLU 4.1 13.5 - - - +
166B CYS* 3.2 11.7 + - + +
168B ALA* 1.3 77.3 - - - +
170B TRP* 1.3 64.5 + - - +
172B ASP* 3.2 14.6 + - - +
173B ILE* 3.0 26.2 + - - +
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Residues in contact with TRP 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B ILE* 4.2 14.6 - - + -
91B GLN* 3.6 22.2 - - + -
143B PRO* 3.5 30.5 - - + +
145B SER 3.9 1.6 - - - -
146B PRO* 3.6 24.7 - - + +
147B PRO* 3.6 26.7 - - + -
150B MET* 4.0 4.9 - - - -
162B LEU* 3.7 19.3 - - + -
166B CYS 2.8 20.1 + - - +
167B TYR 3.8 3.4 - - - +
169B ASP* 1.3 72.4 - - - +
171B ALA* 1.3 62.5 + - - +
173B ILE* 3.2 27.0 + - + -
174B ILE* 3.0 31.0 + - + +
193B VAL 4.9 1.8 + - - -
194B GLN* 5.4 0.8 + - - -
208B TYR* 3.5 22.9 + - - -
216B PHE* 3.4 22.4 - + - -
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Residues in contact with ALA 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B TYR 3.0 18.3 + - - +
168B ALA 3.6 5.4 - - - +
170B TRP* 1.3 77.4 - - - +
172B ASP* 1.3 62.1 + - - +
174B ILE* 3.2 5.4 + - - +
175B ILE* 3.0 25.5 + - - +
216B PHE* 3.8 17.8 - - + -
220B TYR* 3.9 19.3 - - + +
221B LEU* 4.4 7.9 - - + +
224B ARG* 3.7 20.0 - - - +
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Residues in contact with ASP 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B LEU* 5.4 7.7 - - + +
168B ALA* 3.0 23.7 + - - +
169B ASP* 3.2 16.5 + - - +
171B ALA* 1.3 74.1 - - - +
173B ILE* 1.3 60.1 + - + +
175B ILE* 3.1 8.1 + - - +
176B ASN* 2.8 41.1 + - - +
224B ARG* 2.9 26.8 + - - +
1449B GOL 4.8 2.4 + - - -
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Residues in contact with ILE 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B ILE* 5.5 0.7 - - + -
91B GLN* 4.4 1.6 - - - +
102B TYR* 3.9 29.1 - - + -
103B VAL* 3.6 25.8 - - + -
109B LEU* 4.3 11.2 - - + -
114B LEU* 5.0 7.9 - - + -
147B PRO* 3.8 12.6 - - + -
150B MET* 3.4 30.7 - - + -
169B ASP 3.0 14.9 + - - +
170B TRP* 3.2 28.2 + - + +
172B ASP* 1.3 74.9 - - - +
174B ILE* 1.3 59.1 + - - +
176B ASN* 3.1 10.6 + - - +
177B TYR* 2.8 27.4 + - + +
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Residues in contact with ILE 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B ILE* 4.3 22.0 - - + -
143B PRO* 4.4 10.8 - - + -
170B TRP* 3.0 38.7 + - + +
171B ALA 3.5 6.7 - - - +
173B ILE* 1.3 76.2 - - - +
175B ILE* 1.3 62.1 + - + +
177B TYR* 3.2 9.1 + - - +
178B LEU* 3.1 26.2 + - + +
191B LEU* 4.4 18.2 - - + -
193B VAL* 5.4 1.1 - - - +
216B PHE* 3.8 35.9 - - + -
221B LEU* 4.1 19.1 - - + -
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Residues in contact with ILE 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B ALA 3.0 15.4 + - - +
172B ASP* 3.4 9.0 - - - +
174B ILE* 1.3 75.9 - - - +
176B ASN* 1.3 62.3 + - - +
178B LEU* 3.1 10.5 + - + +
179B LEU* 2.9 39.7 + - + +
221B LEU* 4.8 6.7 - - + +
224B ARG* 3.7 37.9 - - + +
225B LEU* 3.8 30.3 - - + +
228B GLN* 3.9 26.9 - - + +
230B MET* 5.1 2.7 - - + -
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Residues in contact with ASN 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B LEU* 5.3 4.7 - - - +
114B LEU* 3.2 35.0 - - + +
116B PHE* 3.9 4.2 - - + -
172B ASP* 2.8 26.2 + - - +
173B ILE* 3.4 8.0 - - - +
175B ILE* 1.3 80.6 - - - +
177B TYR* 1.3 58.8 + - - +
179B LEU* 3.3 17.1 + - - +
180B GLU* 2.8 31.0 + - - +
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Residues in contact with TYR 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B MET* 3.4 34.7 - - - +
89B PRO 4.1 10.4 + - - -
90B ILE* 3.8 21.5 - - + -
102B TYR* 3.4 38.6 - + + -
116B PHE* 3.8 12.0 - + - -
141B ALA* 3.5 21.4 - - + +
173B ILE 2.8 12.5 + - - +
174B ILE* 3.3 13.0 - - - +
176B ASN* 1.3 76.5 - - - +
178B LEU* 1.3 77.0 + - + +
180B GLU* 3.1 3.6 + - - +
181B TYR* 2.9 70.3 + + - -
188B VAL* 4.5 5.6 - - + -
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Residues in contact with LEU 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ILE* 3.1 22.2 + - + +
175B ILE* 3.1 13.7 + - + +
177B TYR* 1.3 89.7 - - + +
179B LEU* 1.3 57.4 + - - +
181B TYR* 3.5 4.0 + - - +
182B ARG* 2.9 28.8 + - - +
186B ILE 4.8 0.9 - - - +
188B VAL* 3.6 41.1 - - + +
191B LEU* 4.3 13.7 - - + -
225B LEU* 3.7 30.1 - - + -
230B MET* 3.8 21.3 - - - +
233B MET* 3.9 9.9 - - + -
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Residues in contact with LEU 179 (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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175B ILE* 2.9 34.4 + - + +
176B ASN* 3.7 16.6 - - - +
178B LEU* 1.3 73.3 - - - +
180B GLU* 1.3 65.7 + - - +
182B ARG* 3.3 33.4 + - - +
183B ARG* 3.0 35.5 + - + +
228B GLN* 3.9 24.0 - - - +
230B MET* 3.9 9.9 - - + -
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Residues in contact with GLU 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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116B PHE* 3.4 47.8 - - + +
120B GLU* 2.9 20.0 - - - +
124B ILE* 4.0 1.8 - - + +
176B ASN 2.8 18.3 + - - +
177B TYR 3.3 4.3 - - - +
179B LEU* 1.3 79.1 - - - +
181B TYR* 1.3 74.7 + - + +
183B ARG* 2.7 41.2 + - - +
184B HIS* 2.8 50.6 + - + -
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Residues in contact with TYR 181 (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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88B MET* 4.0 10.9 - - + +
89B PRO 4.9 0.2 + - - -
116B PHE* 5.0 0.7 - + - -
119B ASP* 2.8 33.8 + - + +
123B LEU* 3.6 17.8 - - - +
124B ILE* 4.3 13.2 - - + -
127B ILE* 3.9 22.4 - - + +
177B TYR* 2.9 58.7 + + - +
178B LEU* 3.9 5.6 - - - +
180B GLU* 1.3 91.4 - - + +
182B ARG* 1.3 60.3 + - - +
184B HIS* 3.0 12.9 + - - +
185B GLY 3.4 0.3 + - - -
186B ILE* 2.9 60.0 + - + +
188B VAL* 4.9 5.2 - - + -
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Residues in contact with ARG 182 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B LEU 2.9 17.8 + - - +
179B LEU* 3.6 25.0 - - - +
180B GLU 3.3 0.2 - - - -
181B TYR* 1.3 76.9 - - - +
183B ARG* 1.3 61.9 + - + +
185B GLY* 2.9 20.6 + - - -
186B ILE 3.4 10.9 + - - +
187B ASN* 3.9 18.0 + - - +
228B GLN* 3.5 20.0 + - - +
229B GLY 5.1 1.4 + - - -
230B MET* 2.9 39.9 - - - +
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Residues in contact with ARG 183 (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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116B PHE* 5.2 2.0 - - - -
120B GLU* 5.6 0.2 + - - -
179B LEU* 3.0 21.1 + - + +
180B GLU* 2.7 43.9 + - - +
181B TYR 3.3 0.4 - - - -
182B ARG* 1.3 79.4 - - + +
184B HIS* 1.3 72.2 + - - +
185B GLY 3.4 1.2 + - - -
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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