Contacts of the helix formed by residues 691 - 703 (chain A) in PDB entry 4BSN
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 ILE 691 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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692A LEU* 1.3 64.4 + - + +
693A LYS* 3.2 11.6 + - - +
694A THR* 3.6 14.8 + - - +
695A ASN* 3.5 16.5 + - - +
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Residues in contact with LEU 692 (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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691A ILE* 1.3 77.1 - - + +
693A LYS* 1.3 60.4 + - - +
695A ASN* 3.2 13.2 + - + +
696A VAL* 3.0 44.3 + - + +
717A MET* 5.3 15.7 - - + -
758A LEU* 4.9 9.4 - - + +
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Residues in contact with LYS 693 (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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631A HIS* 6.0 5.6 - - + +
691A ILE 3.2 7.1 - - - +
692A LEU* 1.3 78.7 - - - +
694A THR* 1.3 60.9 + - - +
696A VAL* 3.2 12.4 - - - +
697A ARG* 3.1 26.2 + - - +
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Residues in contact with THR 694 (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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631A HIS* 4.0 27.1 + - + -
634A TYR* 3.8 38.1 - - + -
691A ILE* 3.6 15.4 + - - -
692A LEU 3.3 0.4 - - - -
693A LYS* 1.3 77.1 - - - +
695A ASN* 1.3 57.3 + - - +
697A ARG* 3.3 8.9 + - + +
698A ALA* 3.0 28.0 + - + +
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Residues in contact with ASN 695 (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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658A MET* 3.9 17.7 - - - +
662A ASN* 5.1 7.1 - - - +
691A ILE 3.5 8.4 + - - +
692A LEU* 3.2 22.9 + - + +
693A LYS 3.2 0.4 - - - -
694A THR* 1.3 80.0 - - - +
696A VAL* 1.3 58.9 + - + +
698A ALA* 3.3 6.6 + - - +
699A CYS* 3.0 23.2 + - - +
706A PHE* 3.2 25.1 - - - -
709A GLN* 5.5 0.2 - - - +
713A ILE* 4.3 21.3 - - - +
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Residues in contact with VAL 696 (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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692A LEU* 3.0 34.0 + - + +
693A LYS* 3.2 21.1 - - - +
695A ASN* 1.3 75.2 - - + +
697A ARG* 1.3 60.2 + - - +
699A CYS* 3.4 11.0 - - + +
700A LYS* 3.1 27.4 + - - +
758A LEU* 4.1 29.2 - - + +
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Residues in contact with ARG 697 (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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631A HIS* 6.4 1.3 - - + -
635A GLU* 4.5 26.1 - - + +
693A LYS 3.1 18.0 + - - +
694A THR* 3.4 12.8 - - + +
695A ASN 3.2 0.2 - - - -
696A VAL* 1.3 80.3 - - - +
698A ALA* 1.3 58.4 + - - +
700A LYS* 3.5 4.7 + - - +
701A ALA* 3.1 27.2 + - - +
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Residues in contact with ALA 698 (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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634A TYR* 5.7 4.9 - - + +
635A GLU* 6.2 0.9 - - - +
638A GLY* 5.7 4.3 - - - -
658A MET* 4.4 21.8 - - + -
694A THR* 3.0 17.2 + - + +
695A ASN* 3.3 6.0 + - - +
697A ARG* 1.3 74.3 - - - +
699A CYS* 1.3 60.2 + - - +
700A LYS 3.3 0.2 - - - -
701A ALA* 4.1 7.2 - - - -
702A VAL* 2.9 39.9 + - + +
706A PHE* 4.2 2.5 - - + -
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Residues in contact with CYS 699 (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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695A ASN 3.0 15.4 + - - +
696A VAL* 3.4 17.3 - - + +
697A ARG 3.2 0.4 - - - -
698A ALA* 1.3 78.6 - - - +
700A LYS* 1.3 59.6 + - - +
703A GLY* 3.4 25.0 + - - +
706A PHE* 3.8 37.9 - - + -
710A LEU* 6.1 0.4 - - - -
758A LEU* 4.4 8.5 - - - -
761A GLY* 4.3 6.5 - - - +
762A TRP* 3.9 33.0 - - - -
765A ARG* 5.3 2.9 - - - +
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Residues in contact with LYS 700 (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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639A TYR* 4.8 5.9 + - - -
696A VAL 3.1 16.1 + - - +
697A ARG* 4.1 4.0 - - - +
699A CYS* 1.3 75.9 - - - +
701A ALA* 1.3 62.9 + - - +
703A GLY* 4.4 5.9 + - - -
761A GLY* 5.9 7.6 - - - -
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Residues in contact with ALA 701 (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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635A GLU* 4.2 25.8 - - + +
638A GLY* 4.1 12.7 - - - +
639A TYR* 3.9 37.2 - - + -
642A GLY* 5.2 1.0 - - - -
697A ARG 3.1 17.8 + - - +
698A ALA* 3.8 8.5 - - - +
699A CYS 3.3 0.4 - - - -
700A LYS* 1.3 78.9 - - - +
702A VAL* 1.3 65.7 + - - +
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Residues in contact with VAL 702 (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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638A GLY* 3.6 24.9 - - - +
641A ILE* 4.2 10.5 - - + -
642A GLY* 4.1 26.1 - - - +
650A GLN* 5.0 1.1 - - - +
654A ILE* 3.8 32.8 - - + -
658A MET* 6.1 1.6 - - + -
698A ALA* 2.9 25.1 + - + +
701A ALA* 1.3 78.6 - - - +
703A GLY* 1.3 60.1 + - - +
705A PRO* 4.1 21.5 - - + +
706A PHE* 4.8 9.6 - - + -
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Residues in contact with GLY 703 (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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699A CYS* 3.4 16.6 + - - +
700A LYS 4.8 4.5 - - - -
701A ALA 3.5 2.1 - - - -
702A VAL* 1.3 78.8 - - - +
704A HIS* 1.3 66.9 + - - +
705A PRO* 3.4 3.2 - - - -
706A PHE* 3.5 17.7 + - - +
762A TRP* 4.8 2.6 - - - -
765A ARG* 4.4 14.4 - - - +
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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