Contacts of the strand formed by residues 182 - 192 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120C ASP* 4.0 15.9 + - - +
175C GLU 4.9 0.2 - - - -
176C VAL* 3.8 0.7 - - - -
177C GLU* 3.0 49.3 + - + +
180C VAL* 3.4 28.5 - - + +
181C GLN* 1.3 78.1 - - - +
183C LEU* 1.3 62.4 + - - +
206C GLU* 3.5 36.3 + - + +
207C LEU 3.4 6.5 - - - +
208C ASN* 2.7 31.0 + - - +
209C ILE* 3.7 8.6 - - - +
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Residues in contact with LEU 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117C MET* 4.3 22.2 - - + -
174C ARG* 3.6 35.2 - - + +
175C GLU 3.8 2.9 - - - +
176C VAL* 3.5 28.5 - - + -
182C LYS* 1.3 77.3 - - - +
184C ARG* 1.3 66.7 + - - +
185C PHE* 3.7 7.8 + - + +
205C ASP 3.6 0.9 - - - +
206C GLU* 3.6 2.6 - - - -
207C LEU* 2.7 55.8 + - + +
209C ILE* 4.1 16.4 - - + -
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Residues in contact with ARG 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1C MET* 5.0 5.5 - - - +
174C ARG* 3.3 7.8 - - - +
175C GLU* 2.8 54.5 + - + +
177C GLU* 6.0 5.4 - - - +
182C LYS 4.4 0.2 - - - -
183C LEU* 1.3 75.2 - - - +
185C PHE* 1.3 59.3 + - - +
186C LYS* 3.7 13.5 - - - +
204C ASP* 3.0 52.2 + - - -
205C ASP 3.6 5.6 - - - -
206C GLU* 4.0 30.8 + - + +
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Residues in contact with PHE 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C LEU* 6.0 1.8 - - + -
16C TYR* 5.1 2.5 - - - -
172C ASP* 3.9 25.6 - - + -
173C TRP 4.1 6.7 - - - -
174C ARG* 4.8 9.2 - - + +
183C LEU* 3.7 8.8 + - + -
184C ARG* 1.3 72.9 - - - +
186C LYS* 1.3 63.1 + - - +
187C ARG* 3.5 46.9 - - + -
203C VAL* 3.6 13.0 - - + +
204C ASP* 3.6 3.3 - - - -
205C ASP* 2.9 39.4 + - + +
207C LEU* 4.1 23.8 - - + -
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Residues in contact with LYS 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160B ASN* 3.1 24.3 + - - +
172C ASP* 3.3 5.2 - - - +
173C TRP* 3.0 73.1 + - + +
175C GLU* 3.0 40.6 + - + -
184C ARG* 3.7 24.9 - - - +
185C PHE* 1.3 78.0 - - - +
187C ARG* 1.3 63.0 + - - +
202C LEU* 4.5 1.8 - - + -
203C VAL 3.2 6.7 - - - +
204C ASP* 3.0 31.8 + - - +
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Residues in contact with ARG 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C LEU* 4.1 12.4 - - - +
15C ILE* 3.8 11.0 - - - +
16C TYR* 2.7 39.0 + - - -
159C TRP* 3.9 17.1 - - - -
170C ILE* 3.5 20.6 - - + +
171C MET 3.3 4.9 - - - -
172C ASP* 2.6 37.2 + - - +
185C PHE* 3.5 26.2 - - + -
186C LYS* 1.3 75.2 - - - +
188C LEU* 1.3 60.5 + - - +
189C VAL* 3.7 16.9 + - + -
201C PHE 3.6 1.4 - - - +
202C LEU* 3.5 4.3 - - - +
203C VAL* 2.7 55.4 + - + +
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Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169B VAL* 4.1 15.0 - - + -
190B GLN* 3.6 24.9 - - - +
192B LEU* 3.9 24.7 - - + -
169C VAL 3.5 2.3 - - - +
170C ILE* 3.3 4.3 - - - +
171C MET* 2.8 59.9 + - + +
173C TRP* 4.2 14.1 - - + -
187C ARG* 1.3 71.5 - - - +
189C VAL* 1.3 61.1 + - - +
190C GLN* 4.0 24.0 - - + +
200C ALA* 4.1 11.4 - - + -
201C PHE 3.7 13.5 - - - +
202C LEU* 4.5 4.0 - - + +
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Residues in contact with VAL 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C LEU* 3.7 40.8 - - + -
15C ILE* 4.5 8.7 - - + -
168C LEU* 4.5 16.2 - - + -
169C VAL 3.8 2.0 - - - -
170C ILE* 4.3 16.4 - - + +
187C ARG* 3.7 32.3 - - + +
188C LEU* 1.3 72.6 - - - +
190C GLN* 1.3 63.0 + - - +
191C ILE* 4.3 13.8 - - + +
199C LYS 3.8 0.7 - - - +
200C ALA* 3.2 4.3 - - - -
201C PHE* 2.9 37.9 + - - +
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Residues in contact with GLN 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A MET* 5.4 2.3 - - - +
188A LEU* 3.8 20.3 - - - +
190A GLN* 3.1 17.2 + - - +
200A ALA* 5.6 2.2 - - - +
190B GLN* 3.0 29.2 - - - +
167C LYS 3.5 1.4 - - - +
168C LEU* 3.3 5.9 - - - +
169C VAL* 2.9 46.1 + - + +
171C MET* 5.8 2.6 - - - +
188C LEU* 4.0 23.1 - - + +
189C VAL* 1.3 75.7 - - - +
191C ILE* 1.3 61.6 + - - +
192C LEU* 3.7 15.6 - - + +
198C VAL* 4.3 12.1 - - + +
199C LYS 3.4 3.6 - - - -
200C ALA* 4.1 12.2 - - + +
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Residues in contact with ILE 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C LEU* 4.2 7.4 - - + -
11C TYR* 3.8 31.4 - - + +
166C GLU* 3.6 42.0 - - + +
167C LYS 3.5 4.0 - - - +
168C LEU* 4.5 8.7 - - + -
189C VAL* 4.3 12.1 - - + +
190C GLN* 1.3 73.5 - - - +
192C LEU* 1.3 64.4 + - - +
193C ARG* 4.0 3.0 + - - +
197C GLU 3.7 1.0 - - - +
198C VAL* 3.4 4.7 - - - -
199C LYS* 2.7 42.8 + - + +
201C PHE* 4.0 31.0 - - + -
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Residues in contact with LEU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188A LEU* 3.8 20.9 - - + -
200A ALA* 3.5 39.9 - - + +
201A PHE* 4.0 2.0 - - - +
202A LEU* 4.0 18.8 - - + +
165C GLU 4.0 1.2 - - - +
166C GLU* 3.4 8.4 - - - -
167C LYS* 2.8 45.5 + - + +
169C VAL* 4.4 9.4 - - + -
190C GLN* 3.7 28.7 - - + +
191C ILE* 1.3 78.3 - - - +
193C ARG* 1.3 64.0 + - - +
197C GLU 3.7 3.6 - - - +
198C VAL* 4.0 11.4 - - + -
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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