Contacts of the strand formed by residues 291 - 295 (chain A) in PDB entry 2AZE
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 PHE 291 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264A VAL* 4.4 2.2 - - + -
265A ASN 3.3 12.3 - - - +
266A THR* 3.8 12.1 - - - +
287A PHE* 3.6 42.2 - + + -
289A ASN 3.5 0.4 + - - -
290A THR* 1.3 78.7 - - - +
292A GLU* 1.3 72.1 + - - +
293A ILE* 3.5 32.1 - - + -
275B ALA* 4.6 8.1 - - + -
276B VAL 5.6 1.1 - - - -
282B PHE* 3.7 15.0 - - + -
283B GLN 4.4 8.1 - - - -
284B ILE* 3.6 23.3 - - + -
848C ILE* 4.2 8.7 - - + -
849C ASN* 4.3 0.5 - - - +
852C VAL* 3.1 48.7 - - + +
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Residues in contact with GLU 292 (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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264A VAL* 3.1 8.0 - - - +
265A ASN* 2.7 55.6 + - - +
290A THR* 5.2 5.8 - - + -
291A PHE* 1.3 79.8 - - - +
293A ILE* 1.3 63.8 + - - +
294A HIS* 3.2 31.7 + - + -
302A ARG* 5.5 0.2 + - - -
260B GLN* 5.3 3.0 + - - +
846C GLN* 5.2 3.1 + - - -
849C ASN* 3.5 18.5 + - + +
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Residues in contact with ILE 293 (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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262A ILE* 3.6 12.3 - - + -
263A ILE 3.3 11.0 - - - +
264A VAL* 4.0 8.7 - - + -
291A PHE* 3.5 31.0 - - + -
292A GLU* 1.3 74.3 - - - +
294A HIS* 1.3 66.4 + - - +
273B LEU* 4.1 22.4 - - + -
275B ALA* 4.7 0.9 - - + -
284B ILE* 3.8 17.9 - - + -
845C PHE* 3.5 43.8 - - + +
846C GLN* 5.0 0.2 - - - +
848C ILE* 3.8 18.4 - - + -
849C ASN* 2.8 28.3 + - - +
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Residues in contact with HIS 294 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262A ILE* 3.6 3.8 - - - +
263A ILE* 2.7 48.9 + - + +
265A ASN* 3.4 17.7 + - - -
292A GLU* 3.2 38.7 + - + -
293A ILE* 1.3 79.0 - - - +
295A ASP* 1.3 66.8 + - - +
298A GLU* 4.4 8.5 - - + -
299A VAL* 4.5 7.0 - - + -
302A ARG* 3.2 43.3 + - - -
254B ILE* 5.3 13.4 - - + +
845C PHE* 3.8 6.1 - - - -
846C GLN* 4.5 4.5 + - - -
849C ASN* 4.0 12.4 + - - -
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Residues in contact with ASP 295 (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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261A PHE* 3.9 1.6 - - - +
262A ILE* 3.3 20.6 - - - +
294A HIS* 1.3 73.5 - - - +
296A ASP* 1.3 76.8 + - - +
297A ILE* 3.5 22.9 - - + +
298A GLU* 3.4 9.1 + - + +
299A VAL* 3.1 31.4 + - - +
837C GLU 5.2 1.2 - - - +
841C THR* 3.8 22.9 - - - +
842C SER* 3.5 23.3 + - - +
845C PHE* 3.6 11.8 - - + -
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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