Contacts of the strand formed by residues 191 - 199 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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174A GLU* 3.0 38.7 + - + +
175A GLY* 3.5 11.0 - - - +
176A VAL* 4.0 16.2 - - + -
180A MET* 6.0 0.7 - - - -
189A HIS 3.9 9.8 + - - +
190A SER* 1.3 80.6 + - - +
192A THR* 1.3 64.4 + - - +
99B VAL* 3.7 0.5 - - - -
100B LYS* 2.9 56.3 + - + +
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Residues in contact with THR 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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149A GLN* 2.8 33.8 + - - +
174A GLU* 3.2 2.8 - - - -
175A GLY 2.9 23.2 + - - -
177A HIS* 4.1 7.4 - - - -
180A MET* 4.1 11.4 - - - +
191A ARG* 1.3 75.4 + - - +
193A VAL* 1.3 70.4 + - - +
194A THR* 4.0 9.2 - - + -
97B VAL* 4.4 3.8 - - + -
98B VAL 3.3 8.3 - - - +
99B VAL* 3.9 13.2 - - + +
132B LEU* 3.7 34.8 - - + +
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Residues in contact with VAL 193 (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 VAL* 3.9 23.6 - - + -
173A VAL 3.2 2.7 - - - +
174A GLU* 3.7 21.5 - - + +
192A THR* 1.3 76.3 - - - +
194A THR* 1.3 71.2 + - - +
195A SER* 5.4 1.6 - - - -
96B MET 4.1 1.8 - - - +
97B VAL* 3.5 2.1 - - - -
98B VAL* 2.7 47.9 + - + +
100B LYS* 3.6 31.6 - - + +
214B HIS* 4.1 25.8 - - + +
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Residues in contact with THR 194 (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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149A GLN* 3.0 43.1 + - + +
150A GLU* 3.8 38.8 - - + +
153A ALA* 3.8 3.2 - - - +
172A VAL* 3.5 3.5 - - - +
173A VAL* 2.8 36.4 + - - +
192A THR* 4.0 9.4 - - + -
193A VAL* 1.3 81.5 - - - +
195A SER* 1.3 65.5 + - - +
96B MET 4.2 6.3 - - - -
97B VAL* 4.4 6.3 - - + -
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Residues in contact with SER 195 (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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150A GLU 5.0 1.7 - - - +
153A ALA* 3.8 8.9 - - - +
154A VAL* 4.8 5.2 - - - +
171A VAL 3.0 15.3 - - - -
172A VAL* 4.0 15.7 - - - -
193A VAL* 5.4 2.7 - - - -
194A THR* 1.3 79.0 - - - +
196A ALA* 1.3 64.4 + - - +
197A MET* 4.9 6.0 - - - +
212A LEU* 6.2 0.7 - - - -
93B GLY* 6.2 0.2 - - - -
95B GLU* 3.1 34.8 + - - +
96B MET* 4.1 11.5 + - - +
210B GLU* 5.6 1.9 + - - -
214B HIS* 5.5 4.8 + - - -
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Residues in contact with ALA 196 (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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153A ALA 3.6 23.6 - - - +
154A VAL* 3.6 23.6 - - + -
157A ALA* 3.7 12.2 - - + +
169A VAL 3.9 1.0 - - - +
170A GLY* 3.4 3.1 - - - -
171A VAL* 2.9 31.6 + - - +
195A SER* 1.3 76.8 - - - +
197A MET* 1.3 63.6 + - - +
198A LEU* 5.5 3.4 - - + -
95B GLU* 3.7 5.4 - - - -
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Residues in contact with MET 197 (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 1.3 - - - -
170A GLY* 3.7 18.6 - - - -
171A VAL 4.6 0.9 - - - -
172A VAL* 5.8 1.1 - - - -
195A SER* 4.9 6.7 - - - +
196A ALA* 1.3 78.1 - - - +
198A LEU* 1.3 70.1 + - - +
201A PHE* 3.1 55.9 - - + +
202A ARG* 3.3 24.0 + - - +
208A ARG* 3.2 33.9 - - + +
211A PHE* 4.3 11.7 - - + -
212A LEU* 5.8 2.2 - - - -
95B GLU* 3.6 35.1 - - + +
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Residues in contact with LEU 198 (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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157A ALA* 3.4 42.0 - - + +
158A GLU* 3.9 16.8 - - + +
161A GLN* 3.9 20.6 - - + +
168A GLY* 3.2 0.8 - - - -
169A VAL* 2.8 46.7 + - + -
196A ALA* 5.2 2.5 - - + -
197A MET* 1.3 79.9 - - - +
199A GLY* 1.3 68.1 + - - +
201A PHE 3.2 7.4 + - - -
202A ARG* 3.5 26.2 - - - +
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Residues in contact with GLY 199 (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 GLN* 5.1 3.2 + - - -
167A GLN 3.6 9.6 - - - -
168A GLY* 4.1 0.9 - - - -
198A LEU* 1.3 72.6 - - - +
200A VAL* 1.3 58.5 + - - -
202A ARG* 3.0 35.6 + - - +
203A GLU* 3.0 19.0 + - - +
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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