Contacts of the helix formed by residues 191 - 208 (chain C) in PDB entry 1OVM
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 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14A ARG* 5.7 2.7 + - - +
177A THR* 4.6 0.3 + - - +
178A PRO 3.8 4.0 - - - +
179A PRO* 3.6 8.0 - - - +
180A VAL* 2.6 37.6 + - - +
181A ASN* 3.7 6.1 + - - +
189C HIS 4.0 0.2 + - - -
190C ALA* 1.3 72.7 - - - +
192C SER* 1.3 67.1 + - - +
193C ALA* 3.1 30.8 + - - +
194C CYS* 2.9 28.7 + - + +
195C LEU* 3.0 11.3 + - - +
321C GLY 4.3 4.2 + - - +
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Residues in contact with SER 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A VAL* 3.2 22.4 - - - +
190C ALA 3.3 6.8 + - - -
191C ASP* 1.3 71.9 + - - +
193C ALA* 1.3 57.7 + - - +
195C LEU* 3.4 9.6 + - - +
196C LYS* 2.9 29.9 + - - +
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Residues in contact with ALA 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A THR* 3.8 7.9 + - - +
178A PRO* 3.7 14.1 - - + +
180A VAL* 3.3 15.5 - - + -
191C ASP* 3.1 13.2 + - - +
192C SER* 1.3 80.7 + - - +
194C CYS* 1.3 64.7 + - - +
196C LYS* 3.3 7.8 + - - +
197C ALA* 3.1 22.0 + - - +
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Residues in contact with CYS 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A CYS* 6.2 0.9 - - - -
177A THR* 3.7 27.1 + - + +
191C ASP* 2.9 24.4 + - + +
193C ALA* 1.3 76.2 - - - +
195C LEU* 1.3 66.9 + - - +
197C ALA* 3.1 4.9 + - - +
198C PHE* 3.0 21.1 + - - +
319C PHE* 4.2 11.0 - - - -
320C THR 3.3 27.1 - - - -
321C GLY 4.9 1.6 - - - +
322C ILE* 3.8 20.4 - - + -
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Residues in contact with LEU 195 (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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190C ALA* 4.4 6.5 - - + +
191C ASP 3.0 11.0 + - - +
192C SER* 3.7 11.7 - - - +
194C CYS* 1.3 76.4 - - - +
196C LYS* 1.3 57.0 + - - +
198C PHE* 3.2 9.6 + - + +
199C ARG* 2.8 29.8 + - + +
322C ILE* 3.9 33.8 - - + +
326C GLN* 3.7 37.0 - - + +
330C THR* 3.7 24.2 - - + +
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Residues in contact with LYS 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192C SER 2.9 17.5 + - - +
193C ALA* 3.4 9.6 - - - +
195C LEU* 1.3 74.3 - - - +
197C ALA* 1.3 60.6 + - - +
199C ARG* 3.1 14.2 + - + +
200C ASP* 2.8 74.0 + - - +
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Residues in contact with ALA 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A THR* 4.1 15.9 - - + -
193C ALA 3.1 12.9 + - - +
194C CYS 3.4 9.2 - - - +
196C LYS* 1.3 76.3 - - - +
198C PHE* 1.3 62.9 + - - +
200C ASP* 3.5 7.8 + - - +
201C ALA* 3.1 24.4 + - - +
319C PHE* 3.6 19.4 - - + -
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Residues in contact with PHE 198 (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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194C CYS 3.0 5.8 + - - +
195C LEU* 3.4 18.4 - - + +
197C ALA* 1.3 78.4 - - - +
199C ARG* 1.3 59.8 + - - +
201C ALA* 3.4 1.2 + - - +
202C ALA* 2.9 29.1 + - + +
305C ILE* 4.5 6.7 - - + -
307C VAL* 4.8 0.7 - - + -
312C ALA* 3.5 26.9 - - + -
313C ARG 4.6 0.2 - - - -
314C VAL* 3.7 21.5 - - + -
319C PHE* 3.7 29.5 - + + -
322C ILE* 3.5 28.0 - - + -
327C ALA* 3.9 29.2 - - + -
330C THR* 4.3 8.1 - - + -
331C LEU* 3.8 33.4 - - + -
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Residues in contact with ARG 199 (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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195C LEU* 2.8 14.8 + - + +
196C LYS* 3.3 17.9 - - - +
198C PHE* 1.3 78.0 - - - +
200C ASP* 1.3 63.1 + - - +
202C ALA* 3.3 1.6 + - - -
203C GLU* 2.9 36.0 + - + +
330C THR* 3.5 37.2 + - + +
333C GLU* 3.3 35.3 + - - +
334C LEU* 3.6 20.2 - - + +
337C GLN* 3.7 23.8 - - - +
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Residues in contact with ASP 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196C LYS* 2.8 63.0 + - - +
197C ALA* 3.9 7.4 - - - +
199C ARG* 1.3 78.3 - - - +
201C ALA* 1.3 64.0 + - - +
203C GLU* 3.4 10.8 + - - +
204C ASN* 3.1 33.7 + - - +
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Residues in contact with ALA 201 (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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197C ALA 3.1 18.3 + - - +
198C PHE 3.8 2.0 - - - +
200C ASP* 1.3 77.7 - - - +
202C ALA* 1.3 63.2 + - - +
204C ASN* 3.6 5.3 + - - +
205C LYS* 3.3 21.7 + - - +
314C VAL* 3.3 31.0 - - + +
319C PHE* 3.7 11.9 - - + -
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Residues in contact with ALA 202 (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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198C PHE* 2.9 20.9 + - + +
199C ARG* 3.7 4.5 - - - +
201C ALA* 1.3 77.8 - - - +
203C GLU* 1.3 57.5 + - - +
205C LYS* 3.3 3.1 + - - +
206C LEU* 2.9 33.2 + - + +
305C ILE* 4.2 16.2 - - + -
314C VAL* 4.2 7.8 - - + +
331C LEU* 3.9 20.9 - - + -
334C LEU* 3.7 15.7 - - + -
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Residues in contact with GLU 203 (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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199C ARG* 2.9 23.3 + - - +
200C ASP* 3.7 11.6 - - - +
202C ALA* 1.3 75.9 - - - +
204C ASN* 1.3 63.0 + - - +
206C LEU* 3.9 3.5 - - - +
207C ALA* 2.7 40.7 + - + +
334C LEU* 3.7 22.6 - - + +
337C GLN* 3.3 23.4 - - - +
338C HIS* 3.9 17.3 + - + +
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Residues in contact with ASN 204 (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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200C ASP* 3.1 20.0 + - - +
201C ALA* 3.9 6.3 - - - +
202C ALA 3.4 0.2 - - - -
203C GLU* 1.3 82.5 - - - +
205C LYS* 1.3 58.7 + - - +
207C ALA* 3.7 5.3 + - - +
208C MET* 3.0 33.0 - - - +
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Residues in contact with LYS 205 (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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201C ALA 3.3 11.2 + - - +
202C ALA 3.3 8.2 + - - +
203C GLU 3.1 0.6 - - - -
204C ASN* 1.3 80.4 - - - +
206C LEU* 1.3 63.0 + - + +
208C MET* 3.4 14.1 + - - +
209C SER* 3.4 11.3 + - - -
278C ASP 3.4 5.3 + - - -
279C THR* 3.0 32.3 - - + -
302C ALA 2.4 32.1 + - - +
303C GLN* 3.1 27.3 + - - +
304C THR 3.7 1.3 - - - +
305C ILE* 4.3 24.9 - - + -
314C VAL* 5.6 4.9 - - + -
315C GLY* 5.9 2.9 - - - +
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Residues in contact with LEU 206 (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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202C ALA 2.9 17.1 + - - +
203C GLU* 3.9 3.8 - - - +
205C LYS* 1.3 76.8 - - - +
207C ALA* 1.3 64.7 + - - +
209C SER* 3.4 18.8 + - - +
212C THR* 4.4 10.0 + - + +
279C THR* 4.0 20.2 - - - +
281C LEU* 4.4 11.2 - - + -
305C ILE* 3.8 22.4 - - + -
331C LEU* 4.7 11.9 - - + -
334C LEU* 4.0 29.2 - - + +
335C CYS* 4.3 21.8 - - - -
338C HIS* 4.4 21.5 - - + +
340C HIS* 4.7 3.5 + - - -
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Residues in contact with ALA 207 (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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203C GLU* 2.7 26.4 + - + +
204C ASN* 4.0 7.2 - - - +
205C LYS 3.2 0.2 - - - -
206C LEU* 1.3 74.7 - - - +
208C MET* 1.3 64.1 + - - +
209C SER 3.4 2.2 + - - +
338C HIS* 3.9 28.0 - - + +
340C HIS* 5.9 0.3 + - - -
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Residues in contact with MET 208 (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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204C ASN* 3.0 24.5 - - - +
205C LYS* 3.4 6.2 + - - +
206C LEU 3.2 0.2 - - - -
207C ALA* 1.3 81.0 - - - +
209C SER* 1.3 62.5 + - - +
210C LYS* 3.5 14.8 + - - +
278C ASP* 4.1 1.7 - - - +
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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