Contacts of the helix formed by residues 723 - 741 (chain A) in PDB entry 2WAC
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 SER 723 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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720A SER* 3.2 25.6 + - - -
721A VAL 3.2 1.4 - - - -
722A GLU* 1.3 81.0 + - - +
724A GLY* 1.3 63.0 + - - +
725A SER 3.3 2.7 - - - -
726A LYS* 3.2 21.1 + - - +
727A LEU* 3.2 15.1 + - - +
810A TYR* 3.9 27.3 - - - -
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Residues in contact with GLY 724 (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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720A SER 3.6 4.7 + - - -
721A VAL* 3.3 15.2 + - - -
722A GLU 3.4 0.6 - - - -
723A SER* 1.3 78.4 - - - +
725A SER* 1.3 56.5 + - - +
727A LEU* 3.5 6.3 + - - +
728A GLU* 3.1 28.6 + - - +
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Residues in contact with SER 725 (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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721A VAL 5.1 0.2 + - - -
722A GLU 4.6 8.7 + - - -
724A GLY* 1.3 72.9 - - - +
726A LYS* 1.3 69.2 + - - +
728A GLU* 3.6 19.5 - - - +
729A SER* 3.1 25.6 + - - -
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Residues in contact with LYS 726 (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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722A GLU 5.5 1.6 - - - +
723A SER* 3.2 18.3 + - - +
725A SER* 1.3 86.8 + - - +
727A LEU* 1.3 61.3 + - - +
729A SER* 3.8 5.3 - - - -
730A LEU* 3.2 21.7 + - - +
807A GLU* 4.3 15.2 + - - +
810A TYR* 3.2 31.3 + - + +
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Residues in contact with LEU 727 (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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719A GLN* 3.4 33.9 - - - +
723A SER 3.2 9.6 + - - +
724A GLY* 4.0 8.3 - - - +
726A LYS* 1.3 75.3 - - - +
728A GLU* 1.3 60.7 + - - +
730A LEU* 3.2 3.9 + - + +
731A MET* 2.9 46.7 + - + +
785A ASP* 3.6 36.3 - - + +
786A TYR* 3.9 18.6 - - + +
810A TYR* 3.9 24.1 - - + -
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Residues in contact with GLU 728 (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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724A GLY 3.1 18.0 + - - +
725A SER* 3.6 19.4 - - - +
727A LEU* 1.3 78.3 - - - +
729A SER* 1.3 62.0 + - - +
731A MET* 4.0 5.4 - - - +
732A SER* 3.2 23.9 + - - -
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Residues in contact with SER 729 (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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725A SER 3.1 18.2 + - - -
726A LYS* 3.8 6.1 - - - -
728A GLU* 1.3 78.5 - - - +
730A LEU* 1.3 64.1 + - - +
732A SER* 3.4 5.8 + - - -
733A LYS* 3.1 49.0 + - - +
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Residues in contact with LEU 730 (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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726A LYS 3.2 10.0 + - - +
727A LEU* 3.2 10.6 + - + +
729A SER* 1.3 79.0 - - - +
731A MET* 1.3 80.6 + - + +
733A LYS* 3.3 6.9 + - - -
734A LEU* 2.9 32.7 + - + +
768A ARG* 3.9 33.7 - - + +
785A ASP* 4.7 0.9 - - - +
804A PHE* 3.7 27.1 - - + +
807A GLU* 3.4 34.5 - - - +
810A TYR* 3.8 15.5 - - + -
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Residues in contact with MET 731 (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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727A LEU* 2.9 25.2 + - + +
728A GLU* 4.0 6.1 - - - +
730A LEU* 1.3 107.5 - - + +
732A SER* 1.3 56.4 + - - +
734A LEU* 3.6 20.3 - - + +
735A HIS* 3.1 28.8 + - - +
766A TRP 4.1 9.5 - - - +
767A TYR* 4.1 21.8 - - + -
768A ARG 4.4 7.6 - - - +
785A ASP* 4.3 13.0 - - - +
786A TYR* 3.6 25.8 - - + +
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Residues in contact with SER 732 (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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728A GLU* 3.2 18.3 + - - -
729A SER* 3.7 7.0 - - - -
730A LEU 3.2 0.2 - - - -
731A MET* 1.3 76.3 - - - +
733A LYS* 1.3 63.1 + - - +
735A HIS* 3.7 7.4 + - - +
736A ALA* 3.2 23.6 + - - +
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Residues in contact with LYS 733 (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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729A SER* 3.1 36.1 + - - +
730A LEU* 3.8 6.5 - - - +
732A SER* 1.3 75.0 - - - +
734A LEU* 1.3 60.4 + - - +
736A ALA* 3.5 5.1 + - - +
737A ASP* 2.9 30.0 + - - +
804A PHE* 3.8 17.6 - - + -
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Residues in contact with LEU 734 (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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730A LEU* 2.9 18.4 + - + +
731A MET* 3.6 23.3 - - + +
733A LYS* 1.3 74.3 - - - +
735A HIS* 1.3 64.4 + - - +
737A ASP* 3.4 1.8 + - - +
738A PHE* 3.0 56.2 + - + +
757A ALA* 5.1 1.1 - - + -
766A TRP* 3.4 33.9 - - + +
767A TYR* 4.1 11.2 - - - +
768A ARG* 4.2 7.6 - - + +
800A LEU* 4.1 11.2 - - + -
804A PHE* 3.5 32.0 - - + -
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Residues in contact with HIS 735 (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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731A MET 3.1 20.0 + - - +
732A SER* 3.8 8.5 - - - +
734A LEU* 1.3 76.7 - - - +
736A ALA* 1.3 62.5 + - + +
738A PHE* 3.8 2.7 - - - +
739A GLN* 3.0 54.0 + - + +
765A GLN* 3.3 28.2 + - - -
766A TRP* 5.5 6.8 + - - +
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Residues in contact with ALA 736 (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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732A SER 3.2 16.6 + - - +
733A LYS* 3.9 5.6 - - - +
735A HIS* 1.3 82.7 - - + +
737A ASP* 1.3 60.3 + - - +
739A GLN* 3.4 6.3 + - - +
740A SER* 2.9 32.9 + - - -
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Residues in contact with ASP 737 (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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733A LYS 2.9 19.1 + - - +
734A LEU* 3.6 7.9 - - - +
736A ALA* 1.3 76.8 - - - +
738A PHE* 1.3 67.3 + - + +
740A SER* 3.8 4.8 - - - -
741A ASN* 2.9 33.6 + - - +
801A PRO* 4.7 9.8 - - - +
804A PHE* 3.5 23.9 - - + -
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Residues in contact with PHE 738 (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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734A LEU* 3.0 39.9 + - + +
735A HIS* 3.8 2.5 - - - +
737A ASP* 1.3 82.8 - - + +
739A GLN* 1.3 59.3 + - - +
741A ASN 4.0 7.0 - - - -
742A PRO* 3.3 26.4 - - - +
743A PRO* 3.5 29.0 - - + +
757A ALA* 3.5 31.4 - - + -
766A TRP* 3.4 49.5 + + + -
798A ALA* 4.1 3.1 - - + -
799A ALA 4.1 14.1 - - - -
801A PRO* 3.9 19.5 - - + -
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Residues in contact with GLN 739 (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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735A HIS* 3.0 45.9 + - + +
736A ALA* 3.8 6.4 - - - +
737A ASP 3.3 0.2 - - - -
738A PHE* 1.3 77.4 - - - +
740A SER* 1.3 63.3 + - - +
741A ASN 3.4 0.2 - - - -
742A PRO* 3.7 13.5 - - - +
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Residues in contact with SER 740 (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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736A ALA 2.9 18.4 + - - -
737A ASP* 3.8 4.9 - - - -
739A GLN* 1.3 79.5 - - - +
741A ASN* 1.3 60.3 + - - +
742A PRO* 3.7 4.6 - - - +
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Residues in contact with ASN 741 (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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737A ASP* 2.9 20.7 + - - +
738A PHE* 3.8 7.5 - - - -
740A SER* 1.3 81.0 - - - +
742A PRO* 1.4 72.1 - - - +
743A PRO* 3.5 5.5 - - - +
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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