Contacts of the strand formed by residues 276 - 285 (chain C) in PDB entry 2ZV6
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 276 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97B ASP* 5.2 7.1 + - - -
237B LYS* 5.8 8.8 - - - +
220C HIS* 3.8 5.6 - - - -
221C PHE 3.0 23.1 + - - +
275C MET* 1.3 78.1 + - - +
277C GLU* 1.3 72.5 + - - +
278C THR* 3.0 22.8 - - + +
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Residues in contact with GLU 277 (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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188C LYS* 4.9 0.9 + - - -
218C SER* 2.7 50.1 - - - +
219C PHE* 2.7 14.6 + - - -
220C HIS* 3.6 31.5 + - + +
276C ARG* 1.3 73.8 - - - +
278C THR* 1.3 62.5 + - - +
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Residues in contact with THR 278 (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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218C SER* 3.8 5.2 - - - -
219C PHE 2.7 30.9 + - - -
221C PHE* 3.1 19.8 - - + +
276C ARG* 3.0 28.0 - - + +
277C GLU* 1.3 76.7 - - - +
279C ARG* 1.3 66.5 + - - +
280C VAL* 3.0 23.7 + - - +
361C GLU* 4.0 7.2 - - - +
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Residues in contact with ARG 279 (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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216C TYR* 3.2 32.8 + - + +
217C THR* 3.2 27.6 + - - +
218C SER* 3.0 30.3 + - - +
278C THR* 1.3 71.6 + - - +
280C VAL* 1.3 64.4 + - - +
360C ASN* 3.4 32.5 - - + +
361C GLU* 3.2 21.3 + - - +
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Residues in contact with VAL 280 (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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215C GLN 3.5 3.8 - - - +
216C TYR* 4.6 2.6 - - - -
217C THR 2.5 38.9 + - - +
219C PHE* 4.2 12.4 - - + +
221C PHE* 3.8 15.9 - - + -
232C LEU* 4.6 13.5 - - + -
278C THR* 3.0 35.0 - - - +
279C ARG* 1.3 74.1 - - - +
281C ASP* 1.3 61.6 + - - +
282C LEU* 3.5 1.6 + - + +
361C GLU* 2.9 25.1 - - + +
362C GLU 4.2 0.7 - - - -
363C PHE* 3.8 29.4 - - + +
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Residues in contact with ASP 281 (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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214C ARG* 4.9 1.6 - - - +
215C GLN 3.5 16.6 + - - +
216C TYR* 3.6 34.2 + - + +
280C VAL* 1.3 68.6 - - - +
282C LEU* 1.3 61.8 + - - +
283C HIS* 3.1 28.2 + - - -
360C ASN 5.7 1.5 - - - +
361C GLU 2.9 8.7 + - - +
362C GLU* 3.4 8.6 - - + +
363C PHE 2.9 22.6 + - - -
364C HIS* 3.2 19.5 + - + -
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Residues in contact with LEU 282 (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 PHE* 4.5 13.7 - - + -
213C MET 3.6 0.3 - - - +
214C ARG* 3.4 1.4 - - - -
215C GLN* 2.6 47.7 + - + +
219C PHE* 3.6 29.6 - - + -
232C LEU* 3.8 15.0 - - + -
234C ILE* 4.1 16.2 - - + -
280C VAL* 3.5 2.2 + - + -
281C ASP* 1.3 74.4 - - - +
283C HIS* 1.3 79.9 + - - +
284C LEU* 3.3 33.2 - - + +
363C PHE* 3.2 26.0 - - + +
365C CYS* 4.6 7.0 - - - -
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Residues in contact with HIS 283 (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 GLU* 4.1 10.5 + - - -
212C MET* 3.0 31.2 - - + +
213C MET 3.3 5.6 - - - -
214C ARG* 3.3 30.2 - - + +
281C ASP* 3.1 24.7 + - - -
282C LEU* 1.3 79.2 - - - +
284C LEU* 1.3 57.3 + - - +
363C PHE 2.8 8.3 + - - -
364C HIS* 3.1 44.4 + + + +
365C CYS* 3.1 22.6 + - - +
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Residues in contact with LEU 284 (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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186C TRP* 4.8 9.2 - - + -
190C PHE* 4.4 8.1 - - + -
212C MET* 3.5 2.5 - - - -
213C MET* 2.8 40.2 + - + +
234C ILE* 4.1 31.4 - - + -
243C MET* 4.5 13.7 - - + -
245C VAL* 4.9 4.7 - - + -
282C LEU* 3.3 19.6 - - + +
283C HIS* 1.3 73.3 - - - +
285C PRO* 1.3 101.7 - - + +
287C PHE* 3.6 21.3 - - + -
336C VAL* 3.8 9.9 - - + -
365C CYS* 4.8 5.8 - - - -
369C PHE* 5.5 3.6 - - + -
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Residues in contact with PRO 285 (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 PHE* 4.7 0.4 - - + -
210C ILE* 3.2 30.1 - - + -
211C GLN 3.6 8.3 - - - +
212C MET* 3.4 17.2 - - + -
213C MET* 3.5 6.8 - - - +
283C HIS 3.8 2.9 - - - +
284C LEU* 1.3 116.8 - - + +
286C ARG* 1.3 62.3 + - - +
287C PHE* 3.6 15.0 - - + +
336C VAL* 3.6 3.6 - - - +
365C CYS* 3.7 20.2 - - + +
369C PHE* 5.1 2.9 - - + -
387C PHE* 4.7 16.8 - - + -
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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