Contacts of the helix formed by residues 760 - 776 (chain 1) in PDB entry 6AH0
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 GLU 760 (chain 1).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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7581 ASP 2.6 6.5 + - - -
7591 ALA* 1.3 72.9 - - - +
7611 TYR* 1.3 63.5 + - - +
7631 ASN* 3.5 0.7 - - - +
7641 TYR* 3.1 18.2 + - - -
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Residues in contact with TYR 761 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7581 ASP* 2.5 10.3 + - - +
7601 GLU* 1.3 69.0 - - - +
7621 ALA* 1.3 64.6 + - - +
7641 TYR* 3.1 4.7 + - - -
7651 TYR* 3.0 19.2 + - - -
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Residues in contact with ALA 762 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7541 ILE* 5.5 4.9 - - - +
7571 MET* 5.0 7.1 - - - +
7581 ASP 2.3 32.4 + - - +
7591 ALA* 4.1 2.9 - - - +
7611 TYR* 1.3 67.0 - - - +
7631 ASN* 1.3 61.3 + - - +
7651 TYR* 4.6 1.1 - - - +
7661 THR* 2.8 24.4 + - - +
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Residues in contact with ASN 763 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7591 ALA* 2.8 28.9 + - - +
7601 GLU* 3.5 2.2 - - - +
7611 TYR 3.0 1.0 - - - -
7621 ALA* 1.3 78.8 - - - +
7641 TYR* 1.3 68.3 + - - +
7661 THR* 3.6 0.5 - - - -
7671 ARG* 3.0 14.4 + - - -
8001 GLY 5.2 7.4 - - - -
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Residues in contact with TYR 764 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7601 GLU 3.1 13.4 + - - -
7611 TYR 3.1 2.8 + - - -
7631 ASN* 1.3 71.8 - - - +
7651 TYR* 1.3 65.0 + - - +
7671 ARG* 2.8 15.1 + - - +
7681 GLU* 3.0 8.8 + - - -
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Residues in contact with TYR 765 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7611 TYR 3.0 12.6 + - - -
7621 ALA* 4.0 2.2 - - - +
7641 TYR* 1.3 74.5 - - - +
7661 THR* 1.3 65.6 + - - +
7681 GLU* 2.9 12.5 + - - +
7691 VAL* 3.1 9.2 + - - -
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Residues in contact with THR 766 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7621 ALA* 2.8 19.2 + - - +
7631 ASN 3.6 0.9 - - - -
7651 TYR* 1.3 74.2 - - - +
7671 ARG* 1.3 54.1 + - - +
7691 VAL* 2.7 25.0 + - - +
7701 MET* 3.1 11.6 + - - -
7951 CYS* 6.4 1.1 - - - +
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Residues in contact with ARG 767 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7631 ASN 3.0 8.9 + - - -
7641 TYR* 2.8 13.1 + - - +
7661 THR* 1.3 71.8 - - - +
7681 GLU* 1.3 61.8 + - - +
7701 MET* 4.2 3.6 + - - +
7711 LEU 4.6 3.3 + - - -
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Residues in contact with GLU 768 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7641 TYR 3.0 6.8 + - - -
7651 TYR* 2.9 10.1 + - - +
7661 THR 2.8 0.6 + - - -
7671 ARG* 1.3 81.3 - - - +
7691 VAL* 1.3 63.2 + - - +
7711 LEU* 3.5 9.4 + - - -
7721 ILE 4.2 2.1 + - - -
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Residues in contact with VAL 769 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7651 TYR 3.1 8.1 + - - -
7661 THR* 2.7 12.7 + - - +
7681 GLU* 1.3 67.6 - - - +
7701 MET* 1.3 53.8 + - - +
7711 LEU 2.7 16.8 + - - -
7721 ILE* 2.7 16.2 + - - +
7731 LEU* 3.0 8.5 + - - -
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Residues in contact with MET 770 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7661 THR 3.1 11.5 + - - -
7671 ARG* 4.2 2.3 + - - +
7681 GLU 3.4 0.8 - - - -
7691 VAL* 1.3 74.5 - - - +
7711 LEU* 1.3 60.3 + - - +
7731 LEU* 3.8 3.6 - - - +
7741 ILE* 2.9 18.2 + - - -
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Residues in contact with LEU 771 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7671 ARG 4.6 3.2 + - - -
7681 GLU 3.5 8.7 + - - -
7691 VAL 2.7 5.7 + - - -
7701 MET* 1.3 70.0 - - - +
7721 ILE* 1.3 56.4 + - - +
7741 ILE* 2.4 27.4 + - - +
7751 ARG 2.9 10.0 + - - -
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Residues in contact with ILE 772 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7681 GLU 4.2 3.0 + - - -
7691 VAL* 2.7 9.9 + - - +
7711 LEU* 1.3 70.0 - - - +
7731 LEU* 1.3 63.8 + - - +
7751 ARG* 3.3 3.7 + - - +
7761 GLU* 2.9 21.1 + - - -
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Residues in contact with LEU 773 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7691 VAL 3.0 9.5 + - - -
7701 MET* 3.8 5.8 - - - +
7711 LEU 2.9 0.8 - - - -
7721 ILE* 1.3 75.9 - - - +
7741 ILE* 1.3 66.0 + - - +
7761 GLU* 2.9 11.7 + - - +
7771 PHE* 3.1 9.2 + - - -
7881 VAL* 6.4 2.7 - - - +
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Residues in contact with ILE 774 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7701 MET 2.9 11.5 + - - -
7711 LEU 2.4 15.9 + - - -
7731 LEU* 1.3 69.0 - - - +
7751 ARG* 1.4 54.2 + - - +
7761 GLU 2.7 12.5 + - - -
7771 PHE* 2.8 10.4 + - - -
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Residues in contact with ARG 775 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7711 LEU 2.9 13.5 + - - -
7721 ILE* 3.3 4.2 + - - +
7741 ILE* 1.4 69.2 - - - +
7761 GLU* 1.3 57.9 + - - +
7771 PHE 3.7 0.3 + - - -
7781 GLN* 4.4 4.0 + - - -
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Residues in contact with GLU 776 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7721 ILE 2.9 10.1 + - - -
7731 LEU* 2.9 8.8 + - - +
7741 ILE 2.7 6.3 + - - -
7751 ARG* 1.3 74.4 - - - +
7771 PHE* 1.3 66.3 + - - +
7781 GLN 3.0 3.6 + - - -
7791 SER* 3.7 7.3 + - - +
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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