Contacts of the helix formed by residues 635 - 657 (chain A) in PDB entry 6X70
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 ASN 635 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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633A PHE* 3.6 1.2 - - - +
634A LYS* 1.3 87.3 - - - +
636A ILE* 1.3 63.5 + - + +
637A THR* 3.1 15.6 + - - +
638A GLN* 2.9 53.6 + - - +
639A VAL* 3.4 15.2 + - - +
722A PRO* 3.5 11.8 - - - +
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Residues in contact with ILE 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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635A ASN* 1.3 73.5 - - + +
637A THR* 1.3 68.8 + - - +
639A VAL* 3.4 5.9 + - + +
640A ASP* 2.9 29.3 + - - +
715A TYR* 3.6 34.5 - - + -
716A ARG* 3.4 36.8 - - + +
720A CYS 5.3 0.2 - - - +
722A PRO* 3.4 19.6 - - + +
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Residues in contact with THR 637 (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 ASN* 3.1 13.4 + - - +
636A ILE* 1.3 85.8 - - - +
638A GLN* 1.3 70.3 + - - +
640A ASP* 3.5 7.8 + - - +
641A LEU* 3.2 34.6 + - + +
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Residues in contact with GLN 638 (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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311A ASP* 3.5 33.6 - - + +
633A PHE* 3.7 25.6 - - + -
634A LYS* 5.1 4.0 - - + +
635A ASN* 2.9 31.3 + - - +
637A THR* 1.3 84.3 - - - +
639A VAL* 1.3 66.1 + - - +
641A LEU* 3.4 27.4 + - - +
642A PHE* 3.1 23.9 + - - +
645A ARG* 4.9 2.4 + - - -
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Residues in contact with VAL 639 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
633A PHE* 3.7 30.3 - - + -
635A ASN 3.4 13.6 + - - +
636A ILE* 3.4 10.5 + - + +
638A GLN* 1.3 77.6 - - - +
640A ASP* 1.3 59.7 + - - +
642A PHE* 3.2 6.6 + - - +
643A ILE* 2.9 41.5 + - + +
715A TYR* 3.7 35.7 - - + +
722A PRO* 4.0 13.9 - - + -
725A LEU* 4.2 12.3 - - + -
728A LEU* 5.0 2.9 - - + -
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Residues in contact with ASP 640 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
636A ILE* 2.9 19.7 + - - +
637A THR* 3.8 6.8 - - - +
638A GLN 3.3 0.2 - - - -
639A VAL* 1.3 78.6 - - - +
641A LEU* 1.3 57.3 + - + +
643A ILE* 3.4 7.5 + - - +
644A GLU* 3.0 38.5 + - - +
712A LYS* 3.4 28.7 + - + +
715A TYR* 5.4 0.5 - - - -
716A ARG* 2.5 48.3 + - - -
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Residues in contact with LEU 641 (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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637A THR* 3.2 22.8 + - + +
638A GLN* 3.8 35.7 - - - +
639A VAL 3.3 0.2 - - - -
640A ASP* 1.3 73.6 - - + +
642A PHE* 1.3 60.2 - - - +
644A GLU* 3.4 23.0 + - + +
645A ARG* 3.0 58.4 + - - +
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Residues in contact with PHE 642 (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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310A CYS 3.8 15.3 - - - -
315A PHE* 3.8 24.9 - + + -
316A LEU* 4.1 17.0 - - + -
625A ILE* 5.9 1.3 - - + -
627A ILE* 3.9 31.0 - - + -
631A ILE* 4.1 20.0 - - + -
633A PHE* 3.6 21.1 - + + -
638A GLN 3.1 17.6 + - - +
639A VAL 3.6 3.8 - - - +
641A LEU* 1.3 74.8 - - - +
643A ILE* 1.3 58.7 + - - +
645A ARG* 3.2 20.1 + - + +
646A GLY* 2.9 26.2 + - - -
728A LEU* 3.6 31.6 - - + -
730A LEU* 5.0 2.6 - - + +
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Residues in contact with ILE 643 (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 VAL* 2.9 36.9 + - + +
640A ASP* 3.7 5.8 - - - +
641A LEU 3.3 0.2 - - - -
642A PHE* 1.3 77.7 - - - +
644A GLU* 1.3 58.0 + - - +
646A GLY 3.2 1.2 + - - -
647A CYS* 2.9 32.8 + - - -
666A LEU* 4.2 11.4 - - + -
708A ALA 4.6 0.9 - - - +
711A MET* 3.8 27.6 - - + -
712A LYS* 3.8 23.6 - - + -
715A TYR* 4.0 24.7 - - + -
728A LEU* 3.9 18.6 - - + -
730A LEU* 3.6 12.4 - - + +
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Residues in contact with GLU 644 (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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640A ASP* 3.0 26.1 + - - +
641A LEU* 3.6 24.2 - - + +
642A PHE 3.3 0.2 - - - -
643A ILE* 1.3 76.4 - - - +
645A ARG* 1.3 56.4 + - + +
647A CYS* 3.2 4.0 + - - -
648A GLN* 2.9 27.0 + - - +
704A PHE* 3.5 35.3 - - + -
708A ALA* 4.6 1.6 - - + -
712A LYS* 2.5 38.2 + - - +
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Residues in contact with ARG 645 (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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310A CYS 4.2 7.5 + - - -
311A ASP* 3.9 27.6 + - - +
312A ASP 4.4 2.5 + - - -
313A PRO* 3.7 45.4 - - - +
316A LEU* 4.1 14.7 - - + +
638A GLN* 4.9 2.8 + - - -
641A LEU* 3.0 46.5 + - - +
642A PHE* 3.2 32.7 + - + +
644A GLU* 1.3 74.8 - - + +
646A GLY* 1.3 64.7 + - - +
648A GLN* 3.2 15.9 + - - +
649A TYR* 3.0 23.6 + - - +
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Residues in contact with GLY 646 (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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316A LEU* 4.0 9.3 - - - +
625A ILE* 3.6 23.3 - - - +
642A PHE* 2.9 14.8 + - - -
643A ILE 3.6 3.1 - - - -
645A ARG* 1.3 76.6 - - - +
647A CYS* 1.3 56.9 + - - +
649A TYR* 3.3 3.5 + - - +
650A LEU* 2.9 32.3 + - - +
730A LEU* 3.8 11.4 - - - -
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Residues in contact with CYS 647 (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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643A ILE* 2.9 25.3 + - - +
644A GLU 3.6 4.9 - - - +
646A GLY* 1.3 75.3 - - - +
648A GLN* 1.3 59.4 + - - +
650A LEU* 3.3 7.2 + - - +
651A LEU* 2.9 36.6 + - + +
704A PHE* 4.2 14.1 - - + -
707A ILE* 4.3 11.9 - - + -
708A ALA* 3.9 19.1 - - + -
711A MET* 3.8 33.7 - - - -
730A LEU* 3.9 7.2 - - - +
732A PHE* 4.6 2.9 - - - -
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Residues in contact with GLN 648 (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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644A GLU 2.9 13.4 + - - +
645A ARG* 3.2 18.9 + - - +
647A CYS* 1.3 75.9 - - - +
649A TYR* 1.3 64.0 + - - +
651A LEU* 3.1 6.9 + - - +
652A GLU* 3.0 34.9 + - + +
704A PHE* 4.2 15.1 - - + -
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Residues in contact with TYR 649 (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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316A LEU* 4.1 17.3 - - + -
320A PHE* 3.8 18.4 - + - -
326A HIS* 3.6 22.3 + - - -
623A LEU* 6.4 0.2 - - + -
625A ILE* 3.6 33.0 - - + -
645A ARG 3.0 13.6 + - - +
646A GLY 3.5 7.4 - - - +
648A GLN* 1.3 76.7 - - - +
650A LEU* 1.3 65.3 + - + +
652A GLU* 3.1 27.1 + - + +
653A LYS* 3.2 50.3 + - + +
7T T 5.1 0.8 + - - -
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Residues in contact with LEU 650 (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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623A LEU* 3.6 35.6 - - + +
624A SER* 3.8 19.7 - - - +
625A ILE* 3.9 17.3 - - + -
646A GLY 2.9 17.6 + - - +
647A CYS* 3.8 2.5 - - - +
649A TYR* 1.3 80.4 - - + +
651A LEU* 1.3 57.9 + - - +
653A LYS* 3.5 5.5 + - + +
654A LEU* 2.9 26.0 + - - +
730A LEU* 3.3 42.8 - - + +
731A GLN 4.4 0.4 - - - +
732A PHE* 3.8 32.3 - - + -
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Residues in contact with LEU 651 (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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647A CYS* 2.9 25.0 + - + +
648A GLN* 3.1 5.4 + - - +
650A LEU* 1.3 74.1 - - - +
652A GLU* 1.3 61.0 + - - +
654A LEU* 3.8 22.9 - - + -
655A ASN* 2.8 42.1 + - - +
702A ASN* 3.2 31.6 - - + +
703A GLU 4.5 0.9 - - - -
704A PHE* 3.7 41.7 - - + -
707A ILE* 3.9 16.6 - - + -
732A PHE* 4.0 7.9 - - + -
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Residues in contact with GLU 652 (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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648A GLN* 3.0 29.8 + - + +
649A TYR* 3.4 19.3 - - + +
651A LEU* 1.3 77.0 - - - +
653A LYS* 1.3 63.4 + - + +
655A ASN* 3.9 4.8 - - - +
656A GLU* 3.0 36.7 + - - +
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Residues in contact with LYS 653 (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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334A ASN* 5.5 5.1 + - - -
623A LEU* 3.6 28.5 - - + -
649A TYR* 3.2 53.5 + - + +
650A LEU* 3.6 3.8 - - - +
652A GLU* 1.3 80.3 - - + +
654A LEU* 1.3 61.6 + - - +
656A GLU* 3.3 44.9 + - - +
657A ILE* 3.5 13.7 + - - +
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Residues in contact with LEU 654 (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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623A LEU* 3.8 10.7 - - + +
650A LEU 2.9 17.8 + - - +
651A LEU* 3.2 26.9 + - + +
653A LYS* 1.3 76.5 - - - +
655A ASN* 1.3 62.5 + - - +
657A ILE* 3.3 12.9 + - + +
658A ASN 3.2 15.1 + - - -
659A LYS* 2.6 41.3 + - + +
660A THR* 4.1 17.0 - - - +
661A THR* 4.2 2.0 - - + +
701A THR 4.2 4.0 - - - +
702A ASN* 4.0 14.1 - - + -
732A PHE* 4.2 20.6 - - + -
735A LEU* 4.4 19.1 - - + -
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Residues in contact with ASN 655 (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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651A LEU* 2.8 33.4 + - - +
652A GLU* 4.2 5.2 - - - +
654A LEU* 1.3 73.6 - - - +
656A GLU* 1.3 67.1 + - - +
658A ASN* 3.2 14.7 + - - +
659A LYS 5.0 1.3 + - - +
702A ASN* 2.9 39.7 + - - +
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Residues in contact with GLU 656 (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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652A GLU* 3.0 23.8 + - - +
653A LYS* 3.3 45.8 + - - +
654A LEU 3.2 0.4 - - - -
655A ASN* 1.3 77.8 - - - +
657A ILE* 1.3 64.6 + - + +
658A ASN* 3.6 1.7 + - - +
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Residues in contact with ILE 657 (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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337A ASP* 4.4 21.3 - - - +
619A GLN* 6.2 2.5 - - - +
620A ARG* 4.0 29.2 - - + +
623A LEU* 5.1 3.6 - - + -
653A LYS 3.9 13.0 - - - +
654A LEU* 3.4 18.4 - - + +
656A GLU* 1.3 81.8 - - + +
658A ASN* 1.3 69.6 + - - +
659A LYS* 3.4 25.9 + - + +
735A LEU* 4.6 15.0 - - + -
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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