Contacts of the helix formed by residues 765 - 776 (chain A) in PDB entry 3ZJU
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 THR 765 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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640A ASP* 3.5 40.4 - - + +
644A LEU* 3.8 21.5 - - + -
670A LEU* 4.3 10.0 - - + +
761A LEU* 2.8 27.7 + - + +
762A ASN 3.8 1.3 - - - -
764A PHE* 1.3 84.6 - - + +
766A PRO* 1.3 65.0 - - - +
767A HIS 3.1 4.5 + - - -
768A ILE* 3.2 25.6 - - - +
769A CYS* 3.4 11.1 + - - -
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Residues in contact with PRO 766 (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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18A TRP* 3.6 14.4 - - + -
64A ARG* 3.6 28.5 - - - +
640A ASP* 3.7 4.3 - - - +
643A ARG* 3.5 28.0 - - - +
762A ASN* 3.2 27.2 + - - +
764A PHE 3.3 9.6 - - - +
765A THR* 1.3 87.9 - - - +
767A HIS* 1.3 70.0 + - + +
769A CYS 3.9 1.1 - - - -
770A PHE* 2.9 31.9 + - - +
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Residues in contact with HIS 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ILE* 3.8 11.1 - - + +
11A GLU* 3.6 33.4 + - + -
14A VAL* 4.1 11.4 - - + +
15A GLN* 2.8 31.5 + - - -
18A TRP* 3.6 15.7 - + - -
115A LEU 3.6 24.0 - - - -
116A GLY* 3.4 12.3 - - - -
639A ALA* 4.3 9.4 - - + -
640A ASP* 2.7 28.3 + - - +
643A ARG* 4.7 0.7 - - - -
765A THR 3.1 1.0 + - - -
766A PRO* 1.3 88.1 - - + +
768A ILE* 1.3 64.7 + - - +
770A PHE* 3.7 2.3 - - - +
771A THR* 3.1 24.3 + - - -
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Residues in contact with ILE 768 (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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5A TYR* 4.0 21.1 - - + -
10A ILE* 4.6 4.5 - - - +
640A ASP* 2.9 19.3 + - + +
670A LEU* 3.9 40.6 - - + +
673A VAL* 4.9 3.1 - - + -
674A TRP* 3.8 24.2 - - + +
765A THR* 3.2 31.0 - - - +
767A HIS* 1.3 76.6 - - - +
769A CYS* 1.3 59.9 + - - +
771A THR* 3.5 6.5 + - - -
772A LEU* 3.0 45.3 + - + +
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Residues in contact with CYS 769 (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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673A VAL* 6.5 0.7 - - - -
758A VAL* 3.0 41.8 - - + +
761A LEU* 3.7 16.6 - - - -
762A ASN* 3.6 31.2 - - + +
765A THR* 3.4 16.0 + - - +
767A HIS 3.3 0.6 - - - -
768A ILE* 1.3 76.9 - - - +
770A PHE* 1.3 69.7 + - - +
771A THR 3.1 1.6 - - - -
772A LEU* 4.3 4.0 - - - +
773A TRP* 2.8 26.9 + - - +
782A ILE* 4.2 2.2 - - + -
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Residues in contact with PHE 770 (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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14A VAL* 3.8 27.4 - - + -
17A HIS* 3.5 40.4 - + + -
18A TRP* 4.3 7.0 - - + -
766A PRO 2.9 20.5 + - - +
767A HIS 3.7 4.3 - - - +
769A CYS* 1.3 78.1 - - - +
771A THR* 1.3 66.9 + - - +
773A TRP* 3.3 13.9 - - - +
774A GLN* 3.4 34.5 + - + +
781A ASP* 3.9 23.1 - - + -
782A ILE* 3.4 24.6 + - + +
783A ASP* 3.5 26.5 - - - -
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Residues in contact with THR 771 (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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10A ILE* 3.5 25.5 - - + +
14A VAL* 4.0 8.5 - - - +
674A TRP* 4.0 26.0 - - + -
767A HIS 3.1 13.6 + - - -
768A ILE* 3.6 8.7 - - - -
769A CYS 3.1 0.4 - - - -
770A PHE* 1.3 81.4 - - - +
772A LEU* 1.3 61.5 + - - +
774A GLN* 3.1 23.3 + - - +
775A GLU* 3.1 22.7 + - + +
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Residues in contact with LEU 772 (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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1A MET* 4.3 10.3 - - - -
673A VAL* 4.0 21.5 - - + -
674A TRP* 3.7 28.9 - - + -
677A VAL* 3.5 35.4 - - + -
758A VAL* 4.1 17.9 - - + -
768A ILE* 3.0 46.1 + - + +
769A CYS* 4.0 5.2 - - - +
771A THR* 1.3 72.8 - - - +
773A TRP* 1.3 59.4 + - - +
775A GLU* 3.1 5.1 + - + +
776A LEU* 2.8 36.8 + - - +
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Residues in contact with TRP 773 (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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755A LEU* 3.2 50.7 - - + -
758A VAL* 4.0 10.1 - - + +
759A ARG* 3.6 25.8 - - - -
769A CYS 2.8 12.7 + - - +
770A PHE 3.3 11.2 - - - +
772A LEU* 1.3 77.8 - - - +
774A GLN* 1.3 64.9 + - + +
776A LEU* 3.4 3.1 + - + +
777A LYS 3.1 3.1 + - - -
778A GLY* 3.0 45.1 + - - -
779A GLU* 3.3 16.8 + - + -
780A GLY 3.2 26.6 + - - -
781A ASP 4.2 0.2 - - - -
782A ILE* 3.5 40.3 - - + +
785A ALA* 3.9 18.3 - - + +
786A PRO* 5.7 1.3 - - + -
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Residues in contact with GLN 774 (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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770A PHE* 3.4 40.4 + - + +
771A THR* 3.1 15.6 + - - +
773A TRP* 1.3 80.0 - - + +
775A GLU* 1.3 61.3 + - - +
777A LYS* 2.6 32.4 + - - +
778A GLY 5.0 2.2 - - - +
780A GLY 5.3 7.9 - - - +
781A ASP* 4.6 8.1 + - - +
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Residues in contact with GLU 775 (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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1A MET* 3.4 64.9 + - + +
677A VAL* 4.5 2.0 - - + -
681A THR* 3.4 17.9 + - - +
771A THR* 3.1 23.0 + - + +
772A LEU* 3.1 13.0 + - + +
774A GLN* 1.3 83.3 - - - +
776A LEU* 1.3 57.9 + - - +
777A LYS* 3.4 8.7 + - - +
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Residues in contact with LEU 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677A VAL* 4.0 16.4 - - + -
680A HIS* 4.0 6.7 - - + -
681A THR* 4.0 18.8 - - + -
751A GLN* 2.9 44.5 + - - +
754A LEU* 4.0 32.8 - - + +
755A LEU* 4.1 17.3 - - + +
758A VAL* 3.9 30.3 - - + -
772A LEU 2.8 20.7 + - - +
773A TRP* 3.9 4.3 - - - +
775A GLU* 1.3 74.5 - - - +
777A LYS* 1.3 69.7 + - - +
778A GLY* 3.5 0.7 + - - -
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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