Contacts of the strand formed by residues 191 - 199 (chain B) in PDB entry 1WUR
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 ARG 191 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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174B GLU* 3.0 41.2 + - + +
175B GLY 3.6 16.4 - - - +
176B VAL* 4.3 9.9 - - + +
189B HIS 4.7 3.1 - - - +
190B SER* 1.3 76.6 + - - +
192B THR* 1.3 65.8 + - - +
193B VAL 4.3 0.2 - - - -
99C VAL* 3.7 2.1 - - - -
100C LYS* 2.9 61.0 + - + +
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Residues in contact with THR 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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149B GLN* 2.7 39.8 + - + +
150B GLU* 5.5 0.2 - - - +
174B GLU* 3.2 2.5 - - - -
175B GLY 2.9 28.2 + - - -
177B HIS* 4.3 3.8 - - - -
180B MET* 5.2 3.3 - - - -
190B SER* 4.8 1.2 + - - -
191B ARG* 1.3 77.5 + - - +
193B VAL* 1.3 66.9 + - - +
194B THR* 4.2 9.0 - - + -
97C VAL* 4.5 2.7 - - + -
98C VAL 3.3 9.2 - - - +
99C VAL* 4.1 12.6 - - + +
132C LEU* 3.6 41.2 - - + +
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Residues in contact with VAL 193 (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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172B VAL* 3.9 25.4 - - + -
173B VAL 3.3 2.2 - - - -
174B GLU* 3.5 32.5 - - + +
192B THR* 1.3 76.3 - - - +
194B THR* 1.3 73.2 + - - +
195B SER* 5.5 1.8 - - - -
96C MET 4.1 1.8 - - - +
97C VAL* 3.6 2.4 - - - -
98C VAL* 2.7 47.5 + - + +
100C LYS* 3.8 19.5 - - + +
214C HIS* 4.0 26.0 - - + +
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Residues in contact with THR 194 (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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149B GLN* 3.1 42.7 + - + +
150B GLU* 3.8 41.7 - - + +
153B ALA* 3.8 3.1 - - - +
172B VAL* 3.5 1.4 - - - -
173B VAL* 2.8 33.9 + - - +
192B THR* 4.2 7.6 - - + -
193B VAL* 1.3 83.6 - - - +
195B SER* 1.3 65.4 + - - +
96C MET 4.3 6.5 - - - -
97C VAL* 4.5 6.1 - - + -
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Residues in contact with SER 195 (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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150B GLU 5.1 1.2 - - - +
153B ALA* 3.8 9.0 - - - +
154B VAL* 4.7 5.9 - - - +
171B VAL 3.0 15.0 - - - -
172B VAL* 4.1 14.6 - - - -
193B VAL* 5.5 2.2 - - - -
194B THR* 1.3 79.4 - - - +
196B ALA* 1.3 63.4 + - - +
197B MET* 4.2 10.1 - - - +
95C GLU* 3.2 34.9 + - - +
96C MET* 4.1 10.6 + - - +
210C GLU* 5.7 1.2 + - - -
214C HIS* 5.5 5.5 + - - -
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Residues in contact with ALA 196 (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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153B ALA 3.5 24.0 - - - +
154B VAL* 3.7 22.7 - - + -
157B ALA* 3.7 12.9 - - + +
169B VAL 4.0 0.3 - - - +
170B GLY* 3.3 3.6 - - - -
171B VAL 2.9 30.5 + - - +
195B SER* 1.3 77.2 - - - +
197B MET* 1.3 64.1 + - - +
198B LEU* 4.3 3.6 - - + -
95C GLU* 3.8 5.2 - - - -
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Residues in contact with MET 197 (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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169B VAL 3.7 1.3 - - - -
170B GLY* 3.7 14.1 - - - -
171B VAL 4.7 0.2 - - - +
172B VAL* 4.4 1.1 - - + -
195B SER* 4.2 22.2 - - - +
196B ALA* 1.3 79.5 - - - +
198B LEU* 1.3 63.5 + - - +
201B PHE* 3.7 26.9 - - - +
202B ARG* 3.1 36.3 + - - +
208B ARG* 3.8 29.4 - - + +
211B PHE* 3.9 24.2 - - + -
212B LEU* 4.3 12.8 - - + -
95C GLU* 3.7 32.0 - - + +
210C GLU* 6.1 0.4 - - - +
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Residues in contact with LEU 198 (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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157B ALA* 3.5 41.3 - - + +
158B GLU* 3.9 15.3 - - + +
161B GLN* 3.9 20.9 - - + +
168B GLY* 4.1 0.4 - - - -
169B VAL* 2.8 46.0 + - + +
196B ALA* 5.5 2.5 - - + -
197B MET* 1.3 83.8 - - - +
199B GLY* 1.3 68.1 + - - +
201B PHE* 3.2 6.8 + - - +
202B ARG* 3.8 18.8 - - - +
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Residues in contact with GLY 199 (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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161B GLN* 5.3 3.5 - - - +
167B GLN 3.5 10.5 - - - -
168B GLY* 4.1 0.9 - - - -
198B LEU* 1.3 73.8 - - - +
200B VAL* 1.3 57.5 + - - -
202B ARG* 2.9 9.6 + - - +
203B GLU* 2.8 35.6 + - - +
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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