Contacts of the strand formed by residues 182 - 192 (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 LYS 182 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120B ASP* 4.2 13.7 + - - +
175B GLU 4.8 0.2 - - - -
176B VAL* 3.7 4.7 - - - +
177B GLU* 2.8 50.5 + - + +
180B VAL* 3.5 28.9 - - + +
181B GLN* 1.3 77.7 - - - +
183B LEU* 1.3 62.4 + - - +
184B ARG* 5.9 1.8 - - + -
206B GLU* 3.1 36.2 + - + +
207B LEU 3.4 8.7 - - - +
208B ASN* 2.7 31.6 + - - +
209B ILE* 4.1 1.6 - - - -
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Residues in contact with LEU 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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117B MET* 4.9 10.1 - - + -
174B ARG* 4.4 17.9 - - + -
175B GLU 3.6 4.7 - - - +
176B VAL* 4.2 22.0 - - + +
182B LYS* 1.3 76.2 - - - +
184B ARG* 1.3 70.1 + - - +
185B PHE* 3.6 28.3 - - + +
205B ASP 3.6 0.3 - - - +
206B GLU* 3.6 2.1 - - - +
207B LEU* 2.7 54.7 + - + +
209B ILE* 4.0 22.4 - - + -
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Residues in contact with ARG 184 (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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174B ARG* 3.4 9.2 - - - +
175B GLU* 2.8 48.6 + - + +
177B GLU* 5.4 13.5 - - + +
182B LYS* 5.9 1.3 - - + -
183B LEU* 1.3 77.0 - - - +
185B PHE* 1.3 60.6 + - - +
186B LYS* 3.6 24.4 + - - +
204B ASP* 2.8 42.4 + - - -
205B ASP 3.6 2.0 - - - -
206B GLU* 3.2 45.7 + - - +
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Residues in contact with PHE 185 (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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4B LEU* 5.3 4.3 - - + -
16B TYR* 5.0 2.7 - - - -
118B TYR* 5.9 0.4 - - - -
172B ASP* 4.4 11.7 - - + -
173B TRP 4.2 4.9 - - - -
174B ARG* 5.1 2.5 - - + +
183B LEU* 3.6 18.2 - - + +
184B ARG* 1.3 70.5 - - - +
186B LYS* 1.3 69.7 + - - +
187B ARG* 3.4 56.8 - - + -
203B VAL* 3.6 15.7 - - + +
204B ASP* 3.5 4.9 + - - +
205B ASP* 3.0 39.1 + - + +
207B LEU* 4.0 19.1 - - + -
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Residues in contact with LYS 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 ASN* 3.0 36.4 + - - +
172B ASP* 3.3 5.7 - - - +
173B TRP* 3.1 71.2 + - + +
175B GLU* 3.4 28.8 + - - +
184B ARG* 3.9 22.1 - - - +
185B PHE* 1.3 77.6 - - - +
187B ARG* 1.3 63.1 + - - +
202B LEU* 4.7 1.1 - - + -
203B VAL 3.3 5.8 - - - +
204B ASP* 3.2 34.7 + - + +
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Residues in contact with ARG 187 (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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4B LEU* 4.0 14.4 - - - +
15B ILE* 3.9 10.7 - - - +
16B TYR* 2.7 38.0 + - - -
159B TRP* 3.8 17.4 - - - -
170B ILE* 3.5 21.0 - - + +
171B MET 3.3 4.7 - - - -
172B ASP* 2.7 36.1 + - - +
185B PHE* 3.4 27.5 - - + -
186B LYS* 1.3 75.3 - - - +
188B LEU* 1.3 59.2 + - - +
189B VAL* 3.7 16.6 + - + -
201B PHE 3.6 1.2 - - - +
202B LEU* 3.5 4.9 - - - +
203B VAL* 2.7 56.0 + - + +
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Residues in contact with LEU 188 (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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169A VAL* 4.0 16.2 - - + -
190A GLN* 3.7 24.5 - - - +
192A LEU* 3.8 25.1 - - + -
169B VAL 3.5 2.4 - - - +
170B ILE* 3.4 4.3 - - - +
171B MET* 2.8 58.6 + - + +
173B TRP* 4.1 15.8 - - + -
187B ARG* 1.3 71.7 - - - +
189B VAL* 1.3 59.3 + - - +
190B GLN* 4.1 25.1 - - + +
200B ALA* 4.3 9.9 - - + -
201B PHE 3.6 12.8 - - - +
202B LEU* 4.5 2.7 - - + -
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Residues in contact with VAL 189 (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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8B LEU* 3.8 38.1 - - + -
15B ILE* 4.3 8.7 - - + -
168B LEU* 4.1 27.8 - - + -
169B VAL 3.7 2.2 - - - -
170B ILE* 4.3 11.2 - - + -
187B ARG* 3.7 26.9 - - + +
188B LEU* 1.3 76.4 - - - +
190B GLN* 1.3 62.9 + - - +
191B ILE* 4.2 8.9 - - + +
199B LYS 3.8 0.5 - - - +
200B ALA* 3.2 2.9 - - - -
201B PHE* 2.9 41.6 + - - +
203B VAL* 4.8 0.2 - - + -
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Residues in contact with GLN 190 (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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190A GLN* 3.0 16.7 - - - +
198A VAL* 6.3 0.4 - - - +
167B LYS 3.5 1.4 - - - +
168B LEU* 3.3 6.1 - - - -
169B VAL* 2.9 44.4 + - + +
171B MET* 5.8 2.4 - - - +
188B LEU* 4.1 18.2 - - + +
189B VAL* 1.3 75.0 - - - +
191B ILE* 1.3 62.5 + - - +
192B LEU* 3.7 16.4 - - + +
198B VAL* 4.3 12.6 - - + +
199B LYS 3.5 4.3 - - - -
200B ALA* 4.1 15.4 - - + +
171C MET* 5.3 1.7 - - - +
188C LEU* 3.6 21.6 - - - +
190C GLN* 3.0 31.8 - - - +
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Residues in contact with ILE 191 (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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8B LEU* 4.3 5.4 - - + -
11B TYR* 3.7 32.8 - - + +
166B GLU* 3.7 41.5 - - + +
167B LYS 3.6 2.7 - - - -
168B LEU* 4.2 12.6 - - + -
189B VAL* 4.2 12.6 - - + +
190B GLN* 1.3 75.0 - - - +
192B LEU* 1.3 62.6 + - - +
193B ARG* 4.0 3.6 + - + +
197B GLU 3.7 1.0 - - - +
198B VAL* 3.5 4.7 - - - +
199B LYS* 2.7 42.9 + - + +
201B PHE* 4.0 28.5 - - + -
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Residues in contact with LEU 192 (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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165B GLU 4.0 0.9 - - - +
166B GLU* 3.4 7.0 - - - -
167B LYS* 2.8 47.2 + - + +
169B VAL* 4.4 9.6 - - + -
190B GLN* 3.7 28.0 - - + +
191B ILE* 1.3 78.3 - - - +
193B ARG* 1.3 64.4 + - - +
197B GLU 3.7 3.4 - - - -
198B VAL* 4.1 10.3 - - + -
188C LEU* 3.9 20.0 - - + -
200C ALA* 3.6 39.9 - - + +
201C PHE* 4.0 0.4 - - - -
202C LEU* 3.9 22.7 - - + +
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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
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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