Contacts of the helix formed by residues 193 - 206 (chain A) in PDB entry 3ZG2
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 ASN 193 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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180A CYS* 5.4 1.3 - - - -
184A PHE* 6.4 0.7 - - - -
189A ARG* 4.1 6.7 - - - +
190A LYS 5.7 0.4 - - - +
192A LEU* 1.3 84.3 - - - +
194A ALA* 1.3 67.9 + - - +
195A ARG* 3.1 52.0 + - - +
196A HIS* 3.3 21.4 + - - +
197A PHE* 3.0 20.5 + - - +
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Residues in contact with ALA 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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176A ILE* 4.0 12.8 - - + +
177A ASN* 2.7 44.0 - - - +
180A CYS* 4.2 19.7 - - + +
189A ARG* 6.2 1.2 - - - +
193A ASN* 1.3 73.7 - - - +
195A ARG* 1.3 53.0 + - - +
197A PHE* 3.0 3.8 + - - +
198A ALA* 2.7 37.2 + - - +
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Residues in contact with ARG 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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156A GLU* 5.8 1.6 + - - -
176A ILE* 5.4 2.0 - - - -
177A ASN* 4.6 1.5 + - - +
193A ASN* 3.1 28.1 + - - +
194A ALA* 1.3 78.8 - - - +
196A HIS* 1.3 63.4 + - - +
198A ALA* 3.5 6.7 + - - +
199A GLN* 3.1 43.1 + - - +
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Residues in contact with HIS 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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191A ARG 5.6 0.8 + - - -
192A LEU* 3.4 22.5 - - + +
193A ASN* 3.3 23.3 + - - +
195A ARG* 1.3 81.3 - - - +
197A PHE* 1.3 61.2 + - - +
199A GLN* 3.3 18.3 + - + +
200A LEU* 3.2 34.0 + - + +
235A GLU* 3.2 29.5 + - - -
239A ILE* 4.7 10.1 - - + -
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Residues in contact with PHE 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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176A ILE* 4.4 8.3 - - + -
180A CYS* 4.1 10.8 - - - -
184A PHE* 3.8 25.1 - + - -
192A LEU* 3.5 16.8 - - + +
193A ASN 3.0 17.3 + - - +
194A ALA* 3.5 4.0 - - - +
196A HIS* 1.3 75.5 - - - +
198A ALA* 1.3 61.7 + - - +
200A LEU* 2.9 13.7 + - + +
201A LEU* 2.8 40.3 + - + +
204A MET* 5.3 1.1 - - + -
236A LEU* 3.7 43.1 - - + -
285A ILE* 4.7 8.3 - - + -
286A VAL* 5.0 3.8 - - + -
289A MET* 3.5 40.4 - - + -
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Residues in contact with ALA 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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176A ILE* 3.9 29.6 - - + +
194A ALA 2.7 20.5 + - - +
195A ARG* 3.8 7.4 - - - +
197A PHE* 1.3 72.1 - - - +
199A GLN* 1.3 57.4 + - - +
201A LEU* 3.0 10.8 + - - +
202A SER* 2.9 32.7 + - - -
293A GLN* 4.5 7.4 - - - +
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Residues in contact with GLN 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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195A ARG* 3.1 33.3 + - - +
196A HIS* 3.4 22.7 - - + +
197A PHE 3.2 0.2 - - - -
198A ALA* 1.3 75.0 - - - +
200A LEU* 1.3 57.9 + - + +
202A SER* 4.1 7.1 - - - -
203A LYS* 3.2 39.4 + - - +
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Residues in contact with LEU 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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192A LEU* 5.6 0.9 - - + -
196A HIS* 3.2 29.4 + - + +
197A PHE* 2.9 16.4 + - + +
199A GLN* 1.3 75.9 - - + +
201A LEU* 1.3 61.7 + - - +
202A SER 3.4 0.2 - - - -
203A LYS* 3.7 17.2 - - + +
204A MET* 2.8 40.1 + - + +
232A ALA* 3.9 32.5 - - + +
235A GLU* 3.3 35.0 - - - +
236A LEU* 4.1 25.1 - - + -
239A ILE* 5.1 1.1 - - + -
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Residues in contact with LEU 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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176A ILE* 3.8 28.5 - - + -
197A PHE* 2.8 24.3 + - + +
198A ALA* 3.0 8.7 + - - +
200A LEU* 1.3 73.2 - - - +
202A SER* 1.3 60.8 + - - +
204A MET* 3.3 21.6 + - + +
205A GLU* 2.9 44.5 + - + +
286A VAL* 4.6 5.2 - - + +
289A MET* 3.9 25.4 - - + +
290A PHE* 4.1 24.5 - - + +
293A GLN* 3.9 18.2 - - + +
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Residues in contact with SER 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 ALA 2.9 15.5 + - - -
199A GLN* 4.1 7.1 - - - -
201A LEU* 1.3 74.8 - - - +
203A LYS* 1.3 64.5 + - - +
205A GLU* 4.1 10.9 + - - -
206A SER* 3.2 28.9 + - - -
294A HIS* 6.1 1.4 - - - -
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Residues in contact with LYS 203 (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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199A GLN* 3.2 27.6 + - - +
200A LEU* 3.8 17.0 - - + +
201A LEU 3.3 0.2 - - - -
202A SER* 1.3 80.5 - - - +
204A MET* 1.3 63.5 + - - +
205A GLU 3.4 0.2 + - - -
206A SER* 3.6 3.5 + - - -
225A GLN* 3.5 20.6 + - - -
228A ARG* 3.0 56.5 - - + +
231A GLU* 4.6 9.9 - - - +
232A ALA* 4.1 18.4 - - + -
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Residues in contact with MET 204 (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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109A VAL* 3.9 11.8 - - + +
197A PHE* 5.3 1.8 - - + -
200A LEU* 2.8 29.2 + - + +
201A LEU* 3.8 19.3 - - + +
203A LYS* 1.3 74.5 - - - +
205A GLU* 1.3 61.8 + - + +
207A SER* 3.3 7.3 + - - -
229A CYS* 3.0 33.2 - - - +
232A ALA* 3.8 15.7 - - + +
233A ARG* 3.2 41.3 - - + -
236A LEU* 4.7 7.2 - - + -
286A VAL* 3.7 42.6 - - + -
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Residues in contact with GLU 205 (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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109A VAL* 4.8 8.3 - - + -
201A LEU* 2.9 29.0 + - + +
202A SER* 3.7 12.0 + - - +
204A MET* 1.3 74.8 - - - +
206A SER* 1.3 59.6 + - - +
207A SER* 2.4 21.2 + - - -
208A LEU* 2.6 45.5 + - + +
290A PHE* 4.0 20.4 - - + -
293A GLN* 5.6 0.9 - - - +
294A HIS* 2.7 38.0 + - - -
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Residues in contact with SER 206 (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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202A SER 3.2 16.3 + - - -
203A LYS* 3.6 9.4 + - - -
204A MET 3.5 0.8 - - - -
205A GLU* 1.3 82.6 - - - +
207A SER* 1.3 59.8 + - - +
208A LEU* 2.9 11.6 + - - +
209A ILE* 5.6 0.5 - - - +
225A GLN* 4.1 14.0 + - - +
228A ARG* 4.7 5.5 + - - -
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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