Contacts of the helix formed by residues 183 - 191 (chain C) in PDB entry 2WJZ
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 ASP 183 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133C ARG* 3.0 38.7 + - - -
172C SER* 2.7 38.4 + - - +
174C ASP* 4.6 0.3 - - - +
175C ARG* 3.8 22.1 + - + +
181C GLY 3.9 0.4 + - - -
182C TYR* 1.3 71.6 - - - +
184C THR* 1.3 59.0 + - - +
185C GLU* 3.4 5.5 + - - +
186C MET* 3.1 24.5 + - + +
187C ILE* 3.2 24.6 + - - +
202C GLY 4.1 3.0 + - - -
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Residues in contact with THR 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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175C ARG* 5.1 3.3 + - - +
182C TYR* 3.0 17.5 + - + +
183C ASP* 1.3 70.5 - - - +
185C GLU* 1.3 61.5 + - - +
187C ILE* 3.8 7.4 - - - -
188C ARG* 2.9 45.2 + - - +
212C GLU* 3.6 42.8 - - + +
213C ALA* 4.2 5.4 - - - +
216C ALA* 3.7 11.5 - - + +
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Residues in contact with GLU 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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133C ARG* 3.3 27.7 + - - +
138C PHE* 4.5 12.1 - - + -
183C ASP* 3.2 6.9 - - - +
184C THR* 1.3 82.1 + - - +
186C MET* 1.3 56.4 + - - +
188C ARG* 3.5 8.0 + - - +
189C PHE* 3.0 28.5 + - + +
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Residues in contact with MET 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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131C ALA* 3.8 33.4 - - + +
132C LYS* 4.6 1.1 - - - +
133C ARG* 4.7 2.2 - - - +
138C PHE* 3.6 35.1 - - + -
153C LEU* 4.2 13.0 - - + -
170C LEU* 3.8 27.6 - - + -
172C SER* 3.4 37.5 - - - +
174C ASP* 5.1 0.2 - - - +
183C ASP* 3.1 25.5 + - - +
185C GLU* 1.3 74.9 - - - +
187C ILE* 1.3 64.6 + - - +
189C PHE* 3.2 4.3 + - - +
190C VAL* 3.0 22.7 + - - +
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Residues in contact with ILE 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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170C LEU* 4.4 16.8 - - + -
182C TYR* 4.3 6.3 - - + -
183C ASP 3.2 17.9 + - - +
184C THR* 3.7 14.1 - - - +
186C MET* 1.3 76.3 - - + +
188C ARG* 1.3 56.1 + - - +
190C VAL* 3.2 1.9 + - - +
191C ARG* 2.8 29.5 + - + +
198C ILE* 4.8 11.1 - - + +
200C ALA* 3.7 29.6 - - + -
213C ALA* 4.1 19.1 - - + +
216C ALA* 3.7 12.1 - - + +
217C GLY 4.1 1.8 - - - -
218C ALA* 3.7 31.6 - - + +
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Residues in contact with ARG 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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184C THR* 2.9 29.5 + - - +
185C GLU* 3.7 6.7 - - - +
187C ILE* 1.3 76.7 - - - +
189C PHE* 1.3 56.7 + - - +
191C ARG* 3.8 3.0 - - - +
192C PRO* 3.0 26.7 - - - +
212C GLU* 4.3 4.2 + - - +
215C LEU* 3.5 26.3 + - - +
216C ALA* 3.5 37.3 + - - +
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Residues in contact with PHE 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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138C PHE* 3.7 41.5 - + + -
153C LEU* 4.4 8.3 - - + -
154C ARG* 4.1 31.2 - - + -
185C GLU* 3.0 18.5 + - + +
186C MET 3.3 6.1 - - - +
188C ARG* 1.3 79.0 - - - +
190C VAL* 1.3 68.7 - - + +
192C PRO* 3.3 12.9 - - - +
193C LEU* 3.6 28.8 - - + +
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Residues in contact with VAL 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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153C LEU* 3.9 27.1 - - + -
157C VAL* 4.1 19.3 - - + -
168C ILE* 5.5 3.6 - - + -
170C LEU* 3.8 23.8 - - + -
186C MET 3.0 18.5 + - - +
187C ILE 3.9 2.9 - - - +
189C PHE* 1.3 77.9 - - + +
191C ARG* 1.3 68.5 + - - +
192C PRO* 3.2 3.8 - - - -
193C LEU* 2.8 22.5 + - + +
194C THR* 3.6 14.8 + - + +
198C ILE* 3.5 23.3 - - + -
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Residues in contact with ARG 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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187C ILE 2.8 18.1 + - - +
188C ARG* 3.8 4.3 - - - +
190C VAL* 1.3 75.4 - - - +
192C PRO* 1.3 64.9 - - + +
194C THR 2.9 38.2 + - - +
195C THR* 3.8 7.3 + - - +
196C LEU 2.9 25.3 + - - -
198C ILE* 3.5 21.1 - - - +
216C ALA 4.1 7.0 - - - +
217C GLY* 2.7 48.5 + - - -
219C ASP* 2.9 24.0 + - - -
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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