Contacts of the strand formed by residues 182 - 192 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120A ASP* 4.2 14.3 + - - +
175A GLU 4.9 0.2 - - - -
176A VAL* 3.6 6.8 - - - +
177A GLU* 2.9 48.8 + - - +
180A VAL* 3.5 29.8 - - + +
181A GLN* 1.3 78.3 - - - +
183A LEU* 1.3 60.9 + - - +
184A ARG* 6.1 1.1 - - - -
206A GLU* 3.5 38.1 + - + +
207A LEU 3.4 7.9 - - - +
208A ASN* 2.8 32.2 + - - +
209A ILE* 4.0 1.1 - - - -
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Residues in contact with LEU 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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117A MET* 4.8 11.7 - - + -
174A ARG* 4.2 23.3 - - + -
175A GLU 3.6 4.3 - - - -
176A VAL* 4.2 15.3 - - + +
182A LYS* 1.3 75.5 - - - +
184A ARG* 1.3 82.7 + - - +
185A PHE* 3.4 19.1 - - + +
206A GLU* 3.6 2.6 - - - +
207A LEU* 2.7 53.2 + - + +
209A ILE* 4.1 20.0 - - + -
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Residues in contact with ARG 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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174A ARG* 3.3 8.3 - - - -
175A GLU* 2.8 45.5 + - + +
177A GLU* 5.3 13.0 - - + +
182A LYS* 5.9 1.3 - - + -
183A LEU* 1.3 79.6 - - - +
185A PHE* 1.3 60.4 + - - +
186A LYS* 3.7 23.2 + - - +
204A ASP* 2.9 45.8 + - - -
205A ASP 3.6 0.7 - - - -
206A GLU* 3.0 46.6 + - - +
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Residues in contact with PHE 185 (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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4A LEU* 5.4 4.5 - - + -
16A TYR* 5.1 3.1 - - - -
118A TYR* 5.8 1.8 - - - -
172A ASP* 4.2 11.9 - - + -
173A TRP 4.3 5.4 - - - -
174A ARG* 5.0 3.6 - - + +
183A LEU* 3.4 17.7 - - + +
184A ARG* 1.3 69.5 - - - +
186A LYS* 1.3 69.4 + - - +
187A ARG* 3.5 52.7 - - + -
203A VAL* 3.7 14.9 - - + +
204A ASP* 3.4 4.3 + - - -
205A ASP* 2.9 39.5 + - + +
207A LEU* 3.8 21.8 - - + -
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Residues in contact with LYS 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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172A ASP* 3.4 4.7 - - - +
173A TRP* 3.0 79.2 + - + +
175A GLU* 3.1 31.7 + - - +
184A ARG* 3.9 21.4 - - - +
185A PHE* 1.3 77.9 - - - +
187A ARG* 1.3 62.4 + - - +
202A LEU* 4.7 0.4 - - + -
203A VAL 3.3 6.1 - - - +
204A ASP* 2.7 41.9 + - + +
160C ASN* 2.9 26.1 + - - +
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Residues in contact with ARG 187 (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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4A LEU* 4.2 12.9 - - - +
15A ILE* 3.8 10.9 - - - +
16A TYR* 2.7 38.2 + - - -
159A TRP* 3.8 15.9 - - - -
170A ILE* 3.5 21.8 - - + +
171A MET 3.3 4.9 - - - -
172A ASP* 2.6 37.3 + - - +
185A PHE* 3.5 26.5 - - + -
186A LYS* 1.3 74.4 - - - +
188A LEU* 1.3 59.7 + - - +
189A VAL* 3.7 15.7 + - + -
201A PHE 3.6 1.6 - - - +
202A LEU* 3.5 4.2 - - - +
203A VAL* 2.7 54.2 + - + +
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Residues in contact with LEU 188 (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 VAL 3.6 1.9 - - - +
170A ILE* 3.4 4.7 - - - +
171A MET* 2.9 55.5 + - + +
173A TRP* 4.1 14.2 - - + -
187A ARG* 1.3 72.5 - - - +
189A VAL* 1.3 59.6 + - - +
190A GLN* 4.0 25.5 - - + +
200A ALA* 4.2 11.0 - - + -
201A PHE 3.6 12.8 - - - +
202A LEU* 4.4 4.0 - - + -
169C VAL* 4.0 16.6 - - + -
190C GLN* 3.8 23.1 - - - +
192C LEU* 3.8 26.2 - - + -
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Residues in contact with VAL 189 (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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8A LEU* 3.8 40.2 - - + -
15A ILE* 4.5 7.4 - - + -
168A LEU* 4.1 29.8 - - + -
169A VAL 3.8 2.0 - - - -
170A ILE* 4.2 12.3 - - + -
187A ARG* 3.7 27.1 - - + +
188A LEU* 1.3 75.8 - - - +
190A GLN* 1.3 63.0 + - - +
191A ILE* 4.0 7.4 + - + +
199A LYS 3.8 0.7 - - - +
200A ALA* 3.2 3.3 - - - -
201A PHE* 2.9 39.7 + - - +
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Residues in contact with GLN 190 (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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167A LYS 3.5 1.7 - - - +
168A LEU* 3.3 6.2 - - - +
169A VAL* 2.9 46.2 + - + +
171A MET* 5.8 2.4 - - - +
188A LEU* 4.0 23.2 - - + +
189A VAL* 1.3 76.8 - - - +
191A ILE* 1.3 59.3 + - - +
192A LEU* 3.8 16.0 - - + +
198A VAL* 4.2 11.3 - - + +
199A LYS 3.4 4.0 - - - -
200A ALA* 4.2 10.5 - - + +
171B MET* 5.2 2.6 - - - +
188B LEU* 3.7 20.6 - - - +
190B GLN* 3.0 31.7 - - - +
190C GLN* 3.1 14.6 - - - +
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Residues in contact with ILE 191 (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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8A LEU* 4.3 3.4 - - + -
11A TYR* 3.4 37.5 - - + +
166A GLU* 3.6 42.0 - - + +
167A LYS 3.5 2.7 - - - -
168A LEU* 4.3 11.2 - - + -
189A VAL* 4.2 13.2 - - + +
190A GLN* 1.3 74.7 - - - +
192A LEU* 1.3 62.3 + - - +
193A ARG* 3.9 3.3 + - + +
197A GLU 3.8 0.5 - - - +
198A VAL* 3.3 4.9 - - - -
199A LYS* 2.7 43.2 + - + +
201A PHE* 4.1 26.2 - - + -
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Residues in contact with LEU 192 (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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165A GLU 4.0 1.2 - - - +
166A GLU* 3.4 7.0 - - - -
167A LYS* 2.8 46.9 + - + +
169A VAL* 4.5 9.4 - - + -
190A GLN* 3.8 27.8 - - + +
191A ILE* 1.3 78.3 - - - +
193A ARG* 1.3 65.6 + - - +
197A GLU 3.7 3.1 - - - -
198A VAL* 4.2 9.2 - - + -
188B LEU* 3.8 20.2 - - + -
200B ALA* 3.5 41.7 - - + +
201B PHE* 4.0 0.2 - - - -
202B LEU* 3.9 21.8 - - + +
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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