Contacts of the helix formed by residues 191 - 202 (chain A) in PDB entry 1WCP
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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188A GLN* 3.9 19.4 + - - +
189A TYR* 3.4 9.1 + - - +
190A LEU* 1.3 77.3 + - - +
192A ASN* 1.3 69.3 + - - +
193A PRO* 3.5 1.6 - - - -
194A PRO* 3.6 11.5 - - - +
195A LYS* 3.5 22.7 - - + +
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Residues in contact with ASN 192 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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190A LEU* 5.9 1.5 - - + +
191A ARG* 1.3 79.2 - - - +
193A PRO* 1.4 78.8 - - + +
195A LYS* 3.0 26.4 + - - +
196A LEU* 3.2 37.8 - - - +
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Residues in contact with PRO 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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183A GLU 4.5 7.4 - - - +
184A LEU 3.1 25.6 - - - +
185A ARG* 4.8 2.0 - - - -
190A LEU* 3.6 37.9 - - + -
191A ARG 3.6 0.9 - - - -
192A ASN* 1.4 100.7 - - + +
194A PRO* 1.3 70.8 - - + +
196A LEU* 3.0 6.6 + - + +
197A VAL* 3.0 26.1 + - + +
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Residues in contact with PRO 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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184A LEU 4.2 0.4 - - - -
185A ARG* 4.0 22.2 - - + -
190A LEU* 4.9 6.1 - - + +
191A ARG* 3.6 12.8 - - - +
192A ASN 3.6 3.1 - - - -
193A PRO* 1.3 97.7 - - + +
195A LYS* 1.3 64.7 + - + +
197A VAL* 4.0 10.3 - - + -
198A THR* 3.0 35.6 + - - +
199A PRO* 4.1 0.2 - - - +
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Residues in contact with LYS 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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191A ARG* 3.5 27.0 - - - +
192A ASN* 3.0 19.1 + - - +
194A PRO* 1.3 77.7 - - + +
196A LEU* 1.3 65.3 + - + +
199A PRO* 3.5 19.6 - - - +
326A GLY* 4.7 10.3 - - - -
330A ARG* 4.9 27.1 - - + +
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Residues in contact with LEU 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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30A MET* 4.9 0.6 - - - +
192A ASN* 3.2 47.3 - - - +
193A PRO* 3.0 4.0 + - + +
195A LYS* 1.3 87.1 - - + +
197A VAL* 1.3 65.5 + - + +
198A THR 3.3 1.7 + - - -
199A PRO* 3.6 5.4 - - - +
200A HIS* 2.9 34.1 + - + -
326A GLY* 6.5 0.7 - - - -
330A ARG* 5.5 12.6 - - - +
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Residues in contact with VAL 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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30A MET* 3.9 21.0 - - + +
112A THR* 4.5 8.3 - - + -
184A LEU* 3.7 49.1 - - + +
185A ARG* 4.1 15.0 - - + -
193A PRO* 3.0 19.4 + - + +
194A PRO* 4.0 5.2 - - + +
196A LEU* 1.3 78.9 - - + +
198A THR* 1.3 76.6 + - - +
200A HIS* 3.3 6.6 + - - +
201A ASP* 3.2 21.4 + - - +
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Residues in contact with THR 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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185A ARG* 2.9 35.5 + - - +
194A PRO* 3.0 21.9 + - - +
197A VAL* 1.3 79.5 - - - +
199A PRO* 1.3 71.0 - - - +
201A ASP* 3.1 6.7 + - - +
202A ARG* 3.1 28.7 + - - +
234A LEU* 3.7 28.9 - - + -
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Residues in contact with PRO 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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194A PRO 4.1 1.1 - - - +
195A LYS* 3.5 24.9 - - - +
196A LEU* 3.6 8.1 - - - +
198A THR* 1.3 96.1 - - - +
200A HIS* 1.3 59.8 + - - +
202A ARG* 3.2 10.6 + - + +
203A MET* 3.2 18.5 + - - +
207A ASP* 5.2 0.9 - - - +
234A LEU* 6.0 4.5 - - + -
321A ASN* 5.8 1.9 + - - +
322A PRO* 3.2 40.0 - - + +
325A ASN* 3.8 23.8 - - + +
326A GLY* 4.6 4.0 - - - +
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Residues in contact with HIS 200 (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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20A ARG* 6.5 0.4 - - + -
26A ASN* 5.4 3.6 + - - +
30A MET* 4.0 36.6 - - + +
196A LEU* 2.9 30.9 + - + -
197A VAL 3.7 5.8 - - - +
198A THR 3.3 0.4 - - - -
199A PRO* 1.3 72.3 - - - +
201A ASP* 1.3 65.6 - - - +
203A MET* 3.2 28.2 + - + +
204A ALA* 3.2 13.0 + - - +
322A PRO* 3.4 36.4 - - + +
323A ALA* 5.3 2.2 - - + -
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Residues in contact with ASP 201 (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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30A MET* 4.3 1.8 - - + -
31A GLY* 3.7 26.2 - - - +
32A PRO* 5.0 0.3 - - - +
112A THR* 3.0 39.2 + - + +
185A ARG* 4.3 8.1 + - - -
197A VAL 3.2 9.7 + - - +
198A THR* 3.1 14.5 + - - +
200A HIS* 1.3 78.2 - - - +
202A ARG* 1.3 74.2 + - - +
203A MET 3.1 5.4 + - - -
204A ALA* 3.2 21.8 + - - +
206A PHE* 4.4 2.9 - - - -
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Residues in contact with ARG 202 (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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198A THR* 3.1 16.3 + - - +
199A PRO* 3.2 12.9 - - + +
201A ASP* 1.3 84.9 - - - +
203A MET* 1.4 53.8 + - - +
206A PHE* 3.6 31.5 - - + +
207A ASP* 3.5 12.8 - - - +
230A LYS* 2.9 57.7 + - + +
231A GLU* 4.3 4.6 + - - -
233A PRO* 5.7 3.6 - - - +
234A LEU* 3.7 36.9 - - - +
325A ASN* 5.2 3.0 - - - +
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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