Contacts of the helix formed by residues 191 - 204 (chain A) in PDB entry 1NOZ
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 GLU 191 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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129A GLU* 3.7 12.9 - - + +
130A ILE* 3.0 35.7 + - + +
148A LEU* 3.6 16.8 - - + +
151A SER* 3.9 3.0 + - - -
190A ASN* 1.3 68.5 - - - +
192A ARG* 1.3 88.2 + - - +
193A ASP 3.1 1.6 - - - -
194A MET* 2.9 6.9 + - + +
195A LEU* 2.8 46.0 + - + +
226A ARG* 2.8 43.4 + - - +
230A ILE* 3.6 10.0 - - - +
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Residues in contact with ARG 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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129A GLU* 3.7 13.5 + - - -
190A ASN* 3.4 26.7 + - - +
191A GLU* 1.3 104.4 + - - +
193A ASP* 1.3 55.0 + - - +
195A LEU* 3.6 2.1 - - - +
196A MET* 2.8 60.7 + - + +
230A ILE* 3.6 38.5 - - + +
231A LEU* 4.2 4.9 - - + +
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Residues in contact with ASP 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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188A PHE* 3.8 16.0 - - + -
189A ASP* 5.2 2.6 + - - +
190A ASN* 2.7 44.3 + - - +
191A GLU 3.1 0.2 - - - -
192A ARG* 1.3 76.9 - - - +
194A MET* 1.3 65.7 + - - +
196A MET* 3.7 14.2 - - - +
197A GLU* 2.9 25.6 + - - +
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Residues in contact with MET 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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130A ILE* 3.3 44.2 - - + +
131A ASP* 4.2 2.7 - - - -
133A ILE* 4.3 11.9 - - + -
146A PHE* 3.5 33.1 - - + +
148A LEU* 3.5 31.6 - - + -
188A PHE* 3.4 34.1 - - + -
190A ASN 3.2 7.8 + - - +
191A GLU* 2.9 13.0 + - + +
193A ASP* 1.3 77.6 - - - +
195A LEU* 1.3 67.1 + - + +
197A GLU* 3.0 5.2 + - - +
198A TYR* 2.9 22.3 + - - +
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Residues in contact with LEU 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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130A ILE* 4.0 23.3 - - + -
133A ILE* 4.8 12.8 - - + -
191A GLU* 2.8 46.9 + - + +
192A ARG 3.6 2.9 - - - +
194A MET* 1.3 72.4 - - + +
196A MET* 1.3 55.0 + - - +
198A TYR* 2.7 28.9 + - + +
199A ILE* 3.0 17.6 + - - +
223A ILE* 5.3 6.1 - - + -
226A ARG* 4.5 8.7 - - + +
227A VAL* 4.1 20.9 - - + +
230A ILE* 3.8 14.8 - - + -
231A LEU* 3.7 25.8 - - + -
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Residues in contact with MET 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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192A ARG* 2.8 41.9 + - + +
193A ASP* 3.7 13.5 - - - +
194A MET 3.4 0.2 - - - -
195A LEU* 1.3 72.8 - - - +
197A GLU* 1.3 52.4 + - - +
199A ILE* 3.8 13.2 + - + +
200A ASN* 2.5 34.1 + - - +
231A LEU* 3.4 34.0 - - + +
238A ARG* 4.9 0.9 + - - -
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Residues in contact with GLU 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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146A PHE* 4.2 2.8 - - + -
186A MET* 3.8 27.3 - - + +
188A PHE* 3.8 17.3 - - + -
193A ASP 2.9 17.6 + - - +
194A MET 3.6 4.0 - - - +
195A LEU 3.0 0.2 - - - -
196A MET* 1.3 76.3 - - - +
198A TYR* 1.3 64.6 + - - +
200A ASN* 3.1 37.3 + - - +
201A LEU* 3.1 8.0 + - - +
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Residues in contact with TYR 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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111A CYS* 3.7 13.3 - - - +
133A ILE* 3.6 34.8 - - + -
135A HIS* 2.7 40.7 - + + -
146A PHE* 3.8 24.7 - + + -
194A MET 2.9 11.0 + - - +
195A LEU* 2.7 20.8 + - + +
197A GLU* 1.3 68.6 - - - +
199A ILE* 1.3 64.0 + - + +
200A ASN 3.0 1.3 - - - -
201A LEU* 3.1 20.5 + - + +
202A TRP* 2.8 40.7 + + - -
223A ILE* 4.0 26.0 - - + +
227A VAL* 5.9 0.9 - - + -
239A PHE* 3.9 21.1 - + - -
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Residues in contact with ILE 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 LEU 3.0 15.0 + - - +
196A MET* 3.8 15.7 - - + +
198A TYR* 1.3 75.8 - - - +
200A ASN* 1.3 56.9 + - - +
202A TRP* 3.2 4.7 + - - +
203A GLU* 2.9 28.0 + - - +
227A VAL* 3.9 22.2 - - + -
231A LEU* 4.7 4.5 - - + -
235A SER* 3.7 26.9 - - - +
238A ARG* 3.5 51.6 - - + +
239A PHE* 3.9 25.4 - - + +
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Residues in contact with ASN 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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196A MET 2.5 28.1 + - - -
197A GLU* 3.1 34.4 + - - +
198A TYR 3.0 0.2 - - - -
199A ILE* 1.3 77.1 - - - +
201A LEU* 1.3 61.9 - - - +
203A GLU* 3.2 10.9 + - - +
204A GLN* 3.0 30.8 + - + +
238A ARG* 4.0 15.1 + - - +
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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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135A HIS* 3.5 41.1 - - + +
137A ASP* 5.8 0.7 - - + +
144A TYR* 4.1 33.4 - - + -
146A PHE* 3.5 30.1 - - + -
197A GLU 3.1 7.8 + - - +
198A TYR* 3.1 17.3 + - + +
200A ASN* 1.3 77.5 - - - +
202A TRP* 1.3 58.3 - - + +
204A GLN* 5.6 1.1 - - - -
205A LYS* 3.0 53.8 + - + +
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Residues in contact with TRP 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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135A HIS* 3.5 12.4 + - - -
198A TYR* 2.8 51.0 + + - +
199A ILE 3.4 8.3 - - - +
201A LEU* 1.3 81.7 - - + +
203A GLU* 1.3 62.6 + - - +
205A LYS 4.3 3.8 - - - -
206A ARG* 3.0 40.5 + - - +
207A PRO* 3.8 23.1 - - + -
210A PHE* 3.1 57.2 - + + -
220A VAL* 6.0 0.2 - - + -
239A PHE* 3.6 41.1 - + + -
262A ILE* 4.1 25.8 - - + -
265A VAL* 4.3 12.3 - - + -
267A ILE* 5.8 0.2 - - + -
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Residues in contact with GLU 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 ILE 2.9 17.1 + - - +
200A ASN* 3.2 12.5 + - - +
202A TRP* 1.3 76.7 - - - +
204A GLN* 1.3 75.4 + - - +
206A ARG* 3.6 34.0 + - - +
238A ARG* 2.7 61.6 + - - +
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Residues in contact with GLN 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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107A ARG* 4.6 3.5 + - - -
200A ASN* 3.0 18.9 + - + +
201A LEU* 4.9 0.9 - - - +
203A GLU* 1.3 90.0 + - + +
205A LYS* 1.3 76.6 + - + +
206A ARG 3.8 1.5 + - - -
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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