Contacts of the strand formed by residues 166 - 177 (chain B) in PDB entry 1WZN
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 GLU 166 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11B TYR* 2.5 35.1 + - - -
162B GLN* 3.1 3.5 - - - +
163B LYS* 2.8 41.8 + - - +
164B GLY 3.2 0.2 - - - -
165B GLU* 1.3 85.1 - - + +
167B LYS* 1.3 61.7 + - - +
168B LEU* 3.8 5.1 - - + +
191B ILE* 3.7 21.8 - - + +
192B LEU 3.4 7.6 - - - +
193B ARG* 3.9 27.5 + - + +
194B PRO* 5.6 0.4 - - + -
199B LYS* 6.2 0.3 - - - +
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Residues in contact with LYS 167 (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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161B GLU 3.6 6.1 - - - +
162B GLN* 3.8 32.3 - - + +
165B GLU 4.7 5.8 - - - +
166B GLU* 1.3 75.5 - - - +
168B LEU* 1.3 61.6 + - - +
169B VAL* 5.2 0.4 - - - -
190B GLN 3.5 1.6 - - - +
191B ILE* 3.6 1.2 - - - -
192B LEU* 2.8 49.8 + - + +
3C GLU* 4.0 26.7 + - - +
7C LEU* 6.2 1.4 - - - +
202C LEU* 4.6 34.9 + - + +
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Residues in contact with LEU 168 (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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11B TYR* 3.8 40.2 - - + -
14B THR* 4.4 9.6 - - + -
15B ILE* 3.9 28.3 - - + -
160B ASN* 3.0 8.9 - - - +
161B GLU* 2.7 41.8 + - + +
163B LYS* 4.5 8.3 - - + +
166B GLU 3.8 14.4 - - - +
167B LYS* 1.3 81.4 - - - +
169B VAL* 1.3 61.9 + - - +
170B ILE* 3.9 10.3 + - + +
189B VAL* 4.1 12.1 - - + -
190B GLN 3.3 3.6 - - - +
191B ILE* 4.2 17.0 - - + -
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Residues in contact with VAL 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B VAL* 3.8 25.1 - - + -
159B TRP 3.6 2.9 - - - +
160B ASN* 4.7 1.1 - - + -
167B LYS 5.1 0.7 - - - +
168B LEU* 1.3 76.3 - - - +
170B ILE* 1.3 63.8 + - - +
171B MET* 4.2 1.3 + - + -
188B LEU 3.5 2.4 - - - +
189B VAL* 3.7 0.3 - - - -
190B GLN* 2.9 47.0 + - + +
192B LEU* 4.4 13.7 - - + -
171C MET* 4.4 2.0 - - + -
173C TRP* 4.0 10.3 - - + -
188C LEU* 4.1 35.4 - - + -
202C LEU* 4.2 24.9 - - + -
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Residues in contact with ILE 170 (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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15B ILE* 4.0 19.3 - - + -
158B VAL* 3.2 6.4 - - - +
159B TRP* 2.8 85.8 + - + +
161B GLU* 4.4 9.4 - - + -
168B LEU* 4.4 15.3 - - + +
169B VAL* 1.3 79.4 - - - +
171B MET* 1.3 60.4 - - - +
172B ASP* 3.3 22.2 - - - +
187B ARG* 3.5 25.4 - - + +
188B LEU 3.4 3.6 - - - +
189B VAL* 4.3 11.7 - - + -
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Residues in contact with MET 171 (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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158A VAL* 3.6 42.6 - - + -
169A VAL* 4.4 3.8 - - + -
171A MET* 4.4 17.9 - - + +
190A GLN* 5.2 2.5 - - - +
156B PRO* 3.8 22.0 - - + -
157B VAL 3.4 3.4 - - - -
158B VAL* 4.0 20.4 - - + -
169B VAL* 4.2 1.3 + - + -
170B ILE* 1.3 71.9 - - - +
172B ASP* 1.3 61.6 + - - +
173B TRP* 3.7 11.2 - - + -
187B ARG* 3.3 1.4 - - - -
188B LEU* 2.8 63.8 + - + +
190B GLN* 5.8 2.2 - - - +
171C MET* 4.5 10.1 - - + +
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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
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155B GLY 4.0 0.9 - - - +
156B PRO* 3.2 6.1 - - - +
157B VAL* 2.9 46.0 + - + +
159B TRP* 3.0 25.3 + - - -
170B ILE* 3.3 2.1 - - - +
171B MET* 1.3 76.0 - - - +
173B TRP* 1.3 63.0 + - - +
185B PHE* 4.4 10.3 - - + -
186B LYS 3.3 7.4 - - - +
187B ARG* 2.7 52.7 + - - +
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Residues in contact with TRP 173 (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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158A VAL* 3.4 50.9 + - + +
159A TRP* 4.1 7.0 - - - +
160A ASN* 3.9 17.3 - - - -
169A VAL* 4.1 10.8 - - + -
155B GLY* 4.3 9.9 - - - +
156B PRO* 4.2 15.5 - - + -
171B MET* 3.7 26.9 - - + -
172B ASP* 1.3 77.9 - - - +
174B ARG* 1.3 69.5 + - - +
175B GLU* 3.4 25.3 + - + -
185B PHE* 4.1 3.6 - - - -
186B LYS* 3.1 53.1 + - + +
188B LEU* 4.1 15.9 - - + -
202B LEU* 3.8 20.6 - - + -
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Residues in contact with ARG 174 (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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155B GLY 5.3 1.0 + - - +
173B TRP* 1.3 82.1 - - - +
175B GLU* 1.3 68.6 + - - +
176B VAL* 3.8 29.1 - - - +
183B LEU* 4.4 21.3 - - + -
184B ARG 3.4 9.9 - - - +
185B PHE* 5.2 3.6 - - + -
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Residues in contact with GLU 175 (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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18A ARG* 5.6 4.3 + - - -
158A VAL 4.8 0.9 - - - +
159A TRP* 4.7 9.2 - - - +
160A ASN* 4.2 3.3 - - - +
173B TRP* 3.4 24.6 + - + -
174B ARG* 1.3 80.0 - - - +
176B VAL* 1.3 62.5 + - - +
177B GLU* 4.2 2.6 + - + +
182B LYS 4.3 0.2 - - - +
183B LEU* 3.6 1.4 - - - -
184B ARG* 2.8 48.7 + - + +
186B LYS* 3.4 26.6 + - - -
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Residues in contact with VAL 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ARG* 3.8 37.5 - - - +
175B GLU* 1.3 76.8 - - - +
177B GLU* 1.3 67.6 + - - +
178B PRO* 3.3 24.6 - - + +
182B LYS 3.7 2.5 - - - -
183B LEU* 4.2 13.7 - - + -
209B ILE* 3.8 25.4 - - + -
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Residues in contact with GLU 177 (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 GLU* 5.1 3.8 - - + +
176B VAL* 1.3 76.3 - - - +
178B PRO* 1.3 63.9 - - - +
179B ALA 3.4 2.8 + - - -
180B VAL* 3.4 20.4 + - + +
181B GLN 3.0 21.5 + - - -
182B LYS* 2.8 37.4 + - + +
184B ARG* 5.4 11.2 - - + +
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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
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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