Contacts of the strand formed by residues 166 - 177 (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 GLU 166 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11A TYR* 2.6 36.4 + - + -
162A GLN* 3.1 5.4 - - - +
163A LYS* 2.9 40.4 + - - +
165A GLU* 1.3 82.7 - - + +
167A LYS* 1.3 61.9 + - - +
168A LEU* 4.0 5.0 - - + +
191A ILE* 3.6 24.1 - - + +
192A LEU 3.4 6.7 - - - +
193A ARG* 2.8 38.4 + - + +
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Residues in contact with LYS 167 (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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161A GLU 3.7 6.1 - - - +
162A GLN* 3.9 31.4 - - + +
165A GLU 4.6 6.3 - - - +
166A GLU* 1.3 77.2 - - - +
168A LEU* 1.3 62.3 - - - +
169A VAL* 4.1 0.7 - - + -
190A GLN 3.5 1.7 - - - +
191A ILE* 3.5 1.6 - - - -
192A LEU* 2.8 52.5 + - + +
3B GLU* 3.8 28.3 + - - +
202B LEU* 4.4 33.9 + - + +
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Residues in contact with LEU 168 (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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11A TYR* 3.9 39.3 - - + -
14A THR* 4.2 11.0 - - + -
15A ILE* 3.9 27.1 - - + -
160A ASN* 3.0 9.5 - - - +
161A GLU* 2.8 42.0 + - + +
163A LYS* 4.5 9.0 - - + +
166A GLU* 4.0 13.5 - - + +
167A LYS* 1.3 81.0 - - - +
169A VAL* 1.3 61.7 + - - +
170A ILE* 4.0 10.0 - - + +
189A VAL* 4.1 18.4 - - + -
190A GLN 3.3 3.4 - - - +
191A ILE* 4.3 12.1 - - + -
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Residues in contact with VAL 169 (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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158A VAL* 3.9 23.1 - - + -
159A TRP 3.6 3.1 - - - -
160A ASN* 4.6 0.9 - - + -
167A LYS 5.2 0.4 - - - +
168A LEU* 1.3 76.0 - - - +
170A ILE* 1.3 63.9 + - - +
171A MET* 6.0 0.7 - - + -
188A LEU 3.6 2.6 - - - +
189A VAL* 3.8 0.3 - - - -
190A GLN* 2.9 47.3 + - + +
192A LEU* 4.5 11.9 - - + -
171B MET* 4.4 2.0 - - + -
173B TRP* 4.1 8.7 - - + -
188B LEU* 4.0 39.0 - - + -
202B LEU* 4.2 25.4 - - + -
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Residues in contact with ILE 170 (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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15A ILE* 4.2 19.1 - - + -
158A VAL* 3.2 6.7 - - - +
159A TRP* 2.7 84.9 + - + +
161A GLU* 4.5 7.0 - - + -
168A LEU* 4.4 17.5 - - + +
169A VAL* 1.3 77.5 - - - +
171A MET* 1.3 62.3 + - - +
172A ASP* 3.5 8.7 - - - +
187A ARG* 3.5 37.2 - - + +
188A LEU 3.4 4.0 - - - +
189A VAL* 4.2 11.7 - - + -
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Residues in contact with MET 171 (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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156A PRO* 3.9 20.4 - - + -
157A VAL 3.3 3.4 - - - -
158A VAL* 3.9 21.5 - - + -
169A VAL* 4.2 1.1 + - + -
170A ILE* 1.3 73.0 - - - +
172A ASP* 1.3 62.6 + - - +
173A TRP* 3.8 11.5 - - + -
187A ARG* 3.3 2.8 - - - -
188A LEU* 2.9 64.1 + - + +
190A GLN* 5.8 2.5 - - - +
156B PRO* 5.9 0.2 - - - -
171B MET* 4.4 18.6 - - + +
158C VAL* 3.6 42.8 - - + -
169C VAL* 4.5 2.2 - - + -
171C MET* 4.7 8.7 - - + +
190C GLN* 5.4 2.0 - - - +
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Residues in contact with ASP 172 (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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155A GLY 4.0 1.2 - - - +
156A PRO* 3.2 5.4 - - - +
157A VAL* 2.8 43.7 + - + +
159A TRP* 2.9 27.0 + - - -
170A ILE* 3.5 1.0 - - - +
171A MET* 1.3 74.4 - - - +
173A TRP* 1.3 62.0 + - - +
185A PHE* 4.4 10.8 - - + -
186A LYS 3.4 5.2 - - - +
187A ARG* 2.6 53.6 + - - +
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Residues in contact with TRP 173 (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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155A GLY 4.5 6.5 - - - +
156A PRO* 4.2 17.3 - - + -
171A MET* 3.8 24.5 - - + -
172A ASP* 1.3 77.8 - - - +
174A ARG* 1.3 69.2 + - - +
175A GLU* 3.2 16.4 + - + -
185A PHE* 4.3 3.0 - - - -
186A LYS* 3.0 70.4 + - + +
188A LEU* 4.1 17.0 - - + -
202A LEU* 3.7 20.9 - - + -
158C VAL* 3.2 51.7 + - + +
159C TRP* 4.0 7.8 - - - +
160C ASN* 3.7 12.3 - - + -
169C VAL* 4.1 9.6 - - + -
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Residues in contact with ARG 174 (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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155A GLY 5.5 0.8 + - - -
173A TRP* 1.3 80.3 - - - +
175A GLU* 1.3 69.4 + - - +
176A VAL* 3.8 28.3 - - - +
183A LEU* 4.2 21.8 - - + -
184A ARG 3.3 10.3 - - - +
185A PHE* 5.0 4.9 - - + -
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Residues in contact with GLU 175 (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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173A TRP* 3.2 18.5 + - + -
174A ARG* 1.3 78.2 - - - +
176A VAL* 1.3 62.5 + - - +
177A GLU* 4.2 2.1 + - + +
183A LEU* 3.6 0.7 - - - -
184A ARG* 2.8 49.7 + - + +
186A LYS* 3.1 30.6 - - - -
158C VAL 4.6 0.7 - - - +
159C TRP* 4.6 9.5 - - - +
160C ASN* 4.3 2.6 + - - +
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Residues in contact with VAL 176 (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* 3.8 38.3 - - - +
175A GLU* 1.3 75.8 - - - +
177A GLU* 1.3 67.5 + - - +
178A PRO* 3.5 24.1 - - + +
182A LYS 3.6 11.0 - - - +
183A LEU* 4.2 13.2 - - + -
209A ILE* 3.8 18.4 - - + -
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Residues in contact with GLU 177 (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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175A GLU* 5.0 4.9 - - + +
176A VAL* 1.3 76.8 - - - +
178A PRO* 1.3 68.1 - - - +
179A ALA* 3.4 3.4 + - + -
180A VAL* 3.4 18.4 + - + +
181A GLN 3.1 3.3 + - - -
182A LYS* 2.9 49.2 + - - +
184A ARG* 5.3 11.2 - - + +
206A GLU* 5.3 2.9 - - - +
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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