Contacts of the helix formed by residues 757 - 771 (chain B) in PDB entry 1WZ2
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 757 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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675B LEU* 4.3 7.6 - - + -
697B LEU* 4.6 7.4 - - + -
700B GLN* 4.0 23.6 - - + -
701B ILE* 4.2 16.8 - - + -
704B PHE* 4.0 21.8 - + + -
753B VAL* 3.0 20.9 + - + +
755B TRP 2.7 5.5 + - - -
756B ALA* 1.3 76.5 - - - +
758B TYR* 1.3 102.5 + + + +
759B SER 2.9 2.6 + - - -
760B ILE 3.3 1.9 + - - -
761B MET* 3.0 48.4 + - + +
790B TRP* 3.8 7.6 - + - +
794B MET* 3.0 41.3 - - + -
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Residues in contact with TYR 758 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
675B LEU* 5.6 0.7 - - + -
679B SER* 3.8 13.6 + - - -
696B LYS* 5.8 2.0 - - - -
697B LEU* 3.0 35.6 - - + +
700B GLN* 4.1 18.8 + - - -
753B VAL* 3.2 26.7 + - + +
754B GLN* 4.0 23.3 - - + +
757B PHE* 1.3 97.6 - + - +
759B SER* 1.3 61.3 + - - +
761B MET* 3.6 4.2 - - - +
762B ASN* 3.1 32.2 + - - +
926D G 5.0 13.2 - - - -
927D G 5.4 11.7 - - - -
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Residues in contact with SER 759 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
732B ARG* 4.2 2.1 + - - -
736B ALA* 4.2 4.9 - - - +
754B GLN* 2.9 21.6 + - - +
755B TRP* 2.9 41.1 + - - -
757B PHE 2.9 1.8 + - - -
758B TYR* 1.3 72.3 - - - +
760B ILE* 1.3 69.1 + - - -
761B MET 3.1 0.9 - - - -
762B ASN* 2.8 16.6 + - - +
763B ASP* 2.8 30.4 + - - +
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Residues in contact with ILE 760 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729B MET* 5.1 0.8 - - - +
732B ARG 5.3 0.4 - - - +
733B LEU* 3.6 28.0 - - + -
736B ALA* 3.7 25.4 - - + -
755B TRP 3.4 5.1 + - - +
756B ALA 3.9 4.9 - - - +
757B PHE 3.3 2.1 + - - +
759B SER* 1.3 80.1 + - - +
761B MET* 1.3 65.0 + - - +
763B ASP* 3.7 6.9 - - - +
764B LEU* 2.8 27.4 + - + +
786B LEU* 4.3 18.4 - - + -
790B TRP* 3.3 56.3 - - + +
793B LEU* 4.2 12.8 - - + -
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Residues in contact with MET 761 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700B GLN* 3.4 37.2 - - + +
703B ARG* 3.9 22.4 - - + -
704B PHE* 4.1 5.2 - - + -
707B LEU* 4.8 5.4 - - - -
757B PHE* 3.0 38.8 + - + +
758B TYR* 3.6 9.9 - - - +
760B ILE* 1.3 80.6 - - - +
762B ASN* 1.3 68.1 + - - +
764B LEU* 3.4 5.4 - - - +
765B ARG* 2.9 30.6 + - + +
790B TRP* 3.2 24.6 - - + -
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Residues in contact with ASN 762 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
758B TYR* 3.1 19.5 + - - +
759B SER* 2.8 12.7 + - - +
761B MET* 1.3 80.4 - - - +
763B ASP* 1.3 66.7 + - - +
765B ARG* 2.9 32.0 + - - +
766B TRP* 3.1 11.5 + - - +
926D G 6.3 1.2 - - - -
927D G 5.9 0.6 + - - -
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Residues in contact with ASP 763 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
728B TRP* 3.3 16.2 - - + -
729B MET* 2.9 26.1 - - + +
732B ARG* 2.7 53.6 + - + +
759B SER* 2.8 42.1 + - - +
760B ILE* 3.7 6.3 + - - +
762B ASN* 1.3 73.6 - - - +
764B LEU* 1.3 56.9 + - - +
766B TRP* 3.3 3.3 + - - +
767B TYR 3.1 17.3 + - - -
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Residues in contact with LEU 764 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707B LEU* 4.4 14.1 - - + -
711B PHE* 4.3 25.1 - - + -
729B MET* 3.4 15.2 - - + +
760B ILE* 2.8 21.2 + - + +
761B MET* 3.4 5.4 - - - +
763B ASP* 1.3 69.0 - - - +
765B ARG* 1.3 66.8 + - - +
766B TRP 3.0 2.2 - - - -
767B TYR* 3.1 5.1 + - + +
768B LEU* 2.9 49.4 + - + +
783B LEU* 4.8 4.9 - - + -
786B LEU* 3.3 28.7 - - + -
790B TRP* 4.1 25.8 - - + -
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Residues in contact with ARG 765 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700B GLN* 6.0 2.0 - - - +
703B ARG* 5.2 5.1 - - - +
761B MET* 2.9 22.9 + - + +
762B ASN* 2.9 21.8 + - - +
764B LEU* 1.3 78.0 - - - +
766B TRP* 1.3 59.3 + - - +
768B LEU* 3.6 10.2 - - - +
769B ARG* 3.0 30.0 + - + +
943D C 3.7 25.9 + - - +
944D C 3.2 41.2 + - - +
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Residues in contact with TRP 766 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725B ILE* 4.7 0.7 - - + -
728B TRP* 3.6 26.7 - + + -
762B ASN 3.1 9.1 + - - +
763B ASP* 3.5 8.7 - - - +
764B LEU 3.0 0.4 - - - -
765B ARG* 1.3 77.9 - - - +
767B TYR* 1.3 56.6 + - - +
768B LEU 3.0 0.2 + - - -
769B ARG* 2.9 38.2 + - + +
770B ARG* 2.5 73.6 + - + +
836B GLU* 2.8 54.1 - - + -
839B ILE* 4.8 2.7 - - + -
840B ARG* 3.5 50.7 - - + +
843B MET* 6.0 1.1 - - - -
933B PHE* 4.8 4.2 - + - -
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Residues in contact with TYR 767 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725B ILE* 3.0 40.8 - - + -
726B ASP* 2.7 40.6 + - - -
728B TRP* 4.5 4.4 - + + -
729B MET* 3.5 37.0 - - + -
763B ASP 3.1 3.2 + - - -
764B LEU* 3.1 8.0 + - + +
766B TRP* 1.3 78.3 - - - +
768B LEU* 1.3 68.5 + - + +
770B ARG* 3.0 8.6 - - - +
771B THR* 2.7 50.3 + - + -
779B LYS* 3.6 17.3 - - + +
782B VAL* 3.6 9.4 - - + +
783B LEU* 3.0 28.3 - - + -
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Residues in contact with LEU 768 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707B LEU* 4.7 19.3 - - + -
711B PHE* 4.9 3.8 - - + -
764B LEU* 2.9 42.8 + - + +
765B ARG* 3.6 10.1 - - - +
767B TYR* 1.3 90.9 - - + +
769B ARG* 1.3 57.1 + - - +
770B ARG 2.5 15.6 + - - -
771B THR* 2.6 18.5 + - - -
772B GLU* 3.1 11.4 + - - -
779B LYS* 4.5 9.6 - - - +
783B LEU* 4.4 14.6 - - + -
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Residues in contact with ARG 769 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765B ARG* 3.0 18.8 + - + +
766B TRP* 2.9 40.8 - - - +
768B LEU* 1.3 77.7 - - - +
770B ARG* 1.3 60.2 + - - +
772B GLU* 3.8 21.9 + - - +
840B ARG* 5.7 0.6 - - - +
843B MET* 6.0 1.2 - - - +
847B LYS* 6.0 1.8 - - - +
933B PHE* 3.5 19.0 - - + -
936B LYS* 5.5 2.1 + - - -
937B GLU* 3.7 37.9 + - - +
943D C 5.4 1.8 - - - -
944D C 3.5 52.9 + - - -
945D C 4.7 4.9 + - - -
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Residues in contact with ARG 770 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725B ILE* 2.8 33.6 - - + +
766B TRP* 2.5 61.2 + - + +
767B TYR* 3.0 12.8 - - - +
768B LEU 2.5 2.8 + - - -
769B ARG* 1.3 72.3 - - - +
771B THR* 1.3 57.4 + - - +
772B GLU 3.6 1.9 + - - -
836B GLU* 3.2 26.1 + - - -
839B ILE* 3.5 20.4 - - - +
925B LYS* 5.0 4.0 - - - +
929B GLU* 3.5 40.2 + - - +
930B ALA* 4.5 6.9 - - - +
933B PHE* 3.2 46.7 - - + +
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Residues in contact with THR 771 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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725B ILE* 3.2 36.8 - - + -
726B ASP* 4.5 0.4 - - - +
767B TYR* 2.7 26.3 + - + +
768B LEU 2.6 9.7 + - - -
770B ARG* 1.3 76.0 - - - +
772B GLU* 1.3 62.1 + - - +
774B ARG* 3.5 34.6 + - - +
779B LYS* 2.6 44.7 + - - +
929B GLU* 5.2 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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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