Contacts of the strand formed by residues 182 - 191 (chain B) in PDB entry 1ZHH
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 VAL 182 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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205A TYR* 4.0 13.2 - - + +
233A SER* 5.5 0.2 - - - -
234A ALA* 2.8 25.1 + - + +
236A TYR* 3.5 39.3 - - + -
120B HIS* 2.9 31.3 + - + +
173B PRO* 3.9 14.8 - - + -
174B ILE 3.6 3.6 - - - +
175B LEU* 3.7 3.4 - - + -
180B GLY 4.2 0.9 - - - +
181B GLU* 1.3 77.9 - - - +
183B LEU* 1.3 57.8 + - - +
184B GLY 3.5 24.5 - - - +
185B PHE* 4.1 16.6 - - + -
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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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254A LYS* 4.3 8.7 - - - +
85B ARG* 4.1 37.0 - - + +
88B TYR* 3.5 36.3 - - + -
119B ASP* 3.7 12.8 - - - +
120B HIS* 4.1 6.5 - - - -
174B ILE* 2.9 28.6 + - + +
175B LEU 4.6 4.5 - - - +
176B ASP* 4.6 7.9 - - + +
181B GLU* 3.7 36.6 - - + +
182B VAL* 1.3 72.8 - - - +
184B GLY* 1.3 56.8 + - - +
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Residues in contact with GLY 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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88B TYR* 3.8 5.2 - - - -
118B THR 3.2 12.6 - - - -
119B ASP* 4.0 7.9 - - - -
120B HIS* 4.5 2.7 - - - -
173B PRO* 3.5 2.8 - - - +
174B ILE 2.8 22.2 + - - -
182B VAL* 3.3 8.9 - - - +
183B LEU* 1.3 82.0 - - - +
185B PHE* 1.3 75.0 + - - -
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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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205A TYR* 4.7 12.8 - - - -
217A ASP* 6.0 0.4 - - - -
231A LEU* 6.1 0.2 - - + -
236A TYR* 5.7 2.7 - - - -
88B TYR* 3.6 5.4 + - - -
117B LEU* 3.3 4.3 - - - -
118B THR* 2.8 44.7 + - - +
119B ASP 5.0 3.1 - - - -
120B HIS* 4.1 24.9 - + - -
150B SER* 3.6 16.2 - - - -
171B ARG* 3.5 44.6 - - + -
172B VAL 3.4 2.9 - - - +
173B PRO* 3.6 31.4 - - + -
174B ILE* 4.2 1.3 - - - +
182B VAL* 4.1 9.9 - - + -
184B GLY* 1.3 76.1 - - - -
186B SER* 1.3 58.8 - - - +
187B PHE* 3.7 17.5 - + + -
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Residues in contact with SER 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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75B HIS* 3.0 28.7 + - - -
79B SER* 3.9 6.4 + - - -
84B ILE* 5.5 3.7 - - - +
100B PHE* 5.6 3.5 - - - -
115B ARG* 5.6 2.1 - - - +
116B PHE 3.7 4.2 + - - -
117B LEU* 3.5 20.7 - - - +
171B ARG* 3.1 2.6 - - - -
172B VAL 2.9 31.6 + - - -
174B ILE* 3.7 18.5 - - - +
185B PHE* 1.3 72.7 - - - +
187B PHE* 1.3 65.1 + - - +
188B ASN* 4.4 1.4 + - - -
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Residues in contact with PHE 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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115B ARG* 3.2 28.0 - - - +
116B PHE* 2.9 51.5 + + + +
118B THR* 3.5 24.0 - - + -
143B LEU 4.2 0.4 - - - -
144B ALA* 3.8 29.4 - - + -
147B VAL* 3.7 26.2 - - + -
169B VAL* 4.2 15.7 - - + -
170B ARG 3.3 7.9 - - - -
171B ARG* 3.7 26.9 - - + -
185B PHE* 3.7 20.2 - + + -
186B SER* 1.3 77.3 + - - +
188B ASN* 1.3 63.4 + - - +
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Residues in contact with ASN 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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71B ILE* 3.7 18.9 + - + +
75B HIS* 3.5 49.1 + - + +
112B PRO* 3.6 27.4 - - + +
114B PHE 3.8 2.9 - - - -
115B ARG* 3.8 18.4 + - - +
153B TRP* 4.1 5.1 - - + -
168B LEU 3.9 0.7 - - - +
169B VAL* 3.3 6.5 - - - +
170B ARG* 3.0 34.0 + - + +
186B SER* 4.4 1.6 + - - -
187B PHE* 1.3 80.9 - - - +
189B ALA* 1.3 60.7 + - - +
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Residues in contact with ALA 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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112B PRO* 3.5 2.5 - - - +
113B GLU* 2.9 24.8 + - - +
114B PHE* 2.9 56.1 + - + +
116B PHE* 5.8 0.7 - - + -
167B MET* 4.9 1.6 - - - -
168B LEU 3.4 4.5 - - - -
169B VAL* 4.1 18.6 - - + -
188B ASN* 1.3 75.5 - - - +
190B VAL* 1.3 63.4 + - - +
191B VAL 4.0 0.2 - - - -
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Residues in contact with VAL 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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67B HIS* 4.7 7.9 - - - +
68B PHE* 3.6 40.8 - - + -
71B ILE* 4.0 24.7 - - + -
112B PRO* 4.7 5.4 - - + -
113B GLU* 3.2 15.5 - - - +
153B TRP* 4.2 12.8 - - + -
167B MET* 3.1 8.0 - - - +
168B LEU* 2.8 33.4 + - + +
189B ALA* 1.3 75.6 - - - +
191B VAL* 1.3 62.4 + - - +
192B LEU* 3.8 13.5 + - + +
195B ASN* 4.5 5.4 - - - +
198B LEU* 5.0 1.3 - - + -
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Residues in contact with VAL 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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113B GLU* 2.9 20.8 + - + +
114B PHE* 3.7 29.8 - - + -
133B TYR* 3.7 37.7 - - + -
165B ARG* 4.0 10.1 - - - -
166B HIS 3.9 3.8 - - - +
167B MET* 4.1 11.9 - - + -
190B VAL* 1.3 72.2 - - - +
192B LEU* 1.3 64.2 + - - +
193B ASP* 3.8 27.1 - - + +
195B ASN* 2.9 28.0 + - - +
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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