Contacts of the strand formed by residues 630 - 636 (chain A) in PDB entry 2C11
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 TYR 630 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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525A HIS* 5.9 1.1 - - - +
576A ALA* 4.9 6.5 - - + -
577A PHE 3.6 9.9 - - - +
578A LEU* 3.2 35.0 - - + -
579A VAL* 3.4 9.7 - - - +
626A SER 4.1 13.5 - - - -
627A TRP 3.0 6.1 + - - +
628A GLU 3.1 0.6 + - - -
629A ARG* 1.3 116.7 + - - +
631A GLN* 1.3 60.3 + - - +
632A LEU* 4.1 13.2 - - - +
633A ALA* 4.6 3.8 - - + -
660A PHE* 3.8 27.8 - + + -
661A SER* 4.0 11.5 + - - -
664A ILE* 3.2 32.7 - - + +
677A TRP 5.5 0.9 - - - +
679A THR* 2.8 30.8 + - - +
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Residues in contact with GLN 631 (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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577A PHE* 2.8 10.3 + - + +
578A LEU 2.6 22.6 + - - -
579A VAL* 3.4 20.2 - - + -
580A GLY* 3.5 3.8 - - - +
581A SER* 2.8 31.4 + - - +
583A THR* 3.6 20.9 + - + +
607A MET* 3.7 26.7 - - + +
611A ALA* 6.0 1.8 - - + -
630A TYR* 1.3 74.1 - - - +
632A LEU* 1.3 64.2 + - + +
677A TRP 4.2 0.2 - - - -
678A VAL* 3.5 1.9 - - - -
679A THR* 2.7 38.0 + - - +
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Residues in contact with LEU 632 (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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575A ALA 4.1 2.9 - - - +
577A PHE* 2.5 43.5 + - + +
583A THR* 6.3 0.9 - - + -
587A LEU* 4.3 24.7 - - + -
605A ILE* 4.3 28.0 - - + +
607A MET* 4.2 13.9 - - - -
630A TYR* 4.2 3.6 - - - +
631A GLN* 1.3 85.5 - - + +
633A ALA* 1.3 73.5 + - - +
634A VAL* 4.5 7.2 - - + -
676A ALA* 3.9 7.9 - - + -
677A TRP 3.1 29.6 - - - +
678A VAL* 3.7 15.0 - - + -
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Residues in contact with ALA 633 (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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575A ALA 3.5 8.3 - - - -
576A ALA* 3.7 17.7 - - + +
630A TYR* 4.6 10.3 - - + -
632A LEU* 1.3 79.1 - - - +
634A VAL* 1.3 67.7 + - - +
635A THR* 5.3 0.4 - - + -
660A PHE* 4.6 3.6 - - + -
664A ILE* 4.4 16.2 - - + -
676A ALA* 3.3 0.2 - - - -
677A TRP* 2.7 46.5 + - + +
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Residues in contact with VAL 634 (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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539A VAL* 4.3 17.9 - - + -
572A GLU* 3.8 22.5 - - - +
575A ALA* 3.7 29.1 + - + +
576A ALA* 4.5 0.6 - - - +
587A LEU* 6.3 1.8 - - + -
589A LEU* 4.4 16.8 - - + -
605A ILE* 5.9 0.2 - - + -
632A LEU* 4.5 10.5 - - + -
633A ALA* 1.3 82.9 - - - +
635A THR* 1.3 72.3 + - - +
664A ILE* 6.0 0.2 - - - +
669A ILE* 4.0 4.5 - - + +
674A LEU* 4.1 22.9 - - + -
675A VAL 3.5 12.3 - - - +
676A ALA* 4.2 11.2 - - + -
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Residues in contact with THR 635 (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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572A GLU* 3.7 15.5 - - + +
633A ALA* 5.2 0.9 - - + -
634A VAL* 1.3 84.1 - - - +
636A GLN* 1.3 63.9 + - - +
641A GLU* 4.4 6.0 + - - -
660A PHE* 5.7 0.2 - - + -
663A PHE* 3.4 31.5 - - + +
664A ILE* 4.6 9.2 - - + -
669A ILE* 4.6 1.3 - - - -
674A LEU* 3.1 14.2 - - - +
675A VAL* 2.8 39.2 + - - +
677A TRP* 3.0 30.0 + - + +
1738A CA 4.4 1.1 - - - -
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Residues in contact with GLN 636 (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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572A GLU* 3.4 6.0 + - - +
635A THR* 1.3 77.5 + - - +
637A ARG* 1.3 53.0 + - - +
638A LYS* 2.6 43.6 + - + +
641A GLU* 4.0 6.1 - - - +
667A GLU* 2.7 43.8 + - - +
668A THR* 3.1 27.6 + - - +
669A ILE* 5.0 1.1 - - + -
672A LYS* 3.9 30.5 - - + +
673A ASP 3.4 6.7 - - - +
674A LEU* 4.1 3.1 - - + -
675A VAL* 4.0 1.1 - - - +
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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