Contacts of the helix formed by residues 760 - 776 (chain A) in PDB entry 4EZJ
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 760 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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758A ASP* 4.5 2.9 + - - -
759A VAL* 1.3 77.7 - - - +
761A SER* 1.3 66.0 + - - +
762A GLN* 3.1 24.5 + - - +
763A VAL* 3.2 29.4 + - - +
764A ILE* 3.3 19.8 + - - +
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Residues in contact with SER 761 (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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759A VAL 4.4 0.2 + - - -
760A SER* 1.3 74.4 + - - +
762A GLN* 1.4 58.7 + - - +
764A ILE* 3.6 13.8 + - - +
765A SER* 3.1 28.5 + - - -
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Residues in contact with GLN 762 (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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752A LEU* 5.9 3.3 - - - +
760A SER* 3.1 12.1 + - - +
761A SER* 1.4 79.1 + - - +
763A VAL* 1.3 56.5 + - + +
765A SER* 3.3 8.7 + - - +
766A GLN* 2.8 49.0 + - + +
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Residues in contact with VAL 763 (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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749A ILE* 4.1 26.2 - - + +
752A LEU* 5.7 4.5 - - + -
753A SER* 4.5 22.0 - - - +
759A VAL* 6.2 0.4 - - + -
760A SER* 3.2 27.2 + - - +
762A GLN* 1.3 77.5 - - + +
764A ILE* 1.4 53.6 + - + +
766A GLN* 3.0 9.1 + - + +
767A LEU* 2.7 34.0 + - - +
803A VAL* 4.0 26.0 - - + -
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Residues in contact with ILE 764 (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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759A VAL* 4.1 20.2 - - + -
760A SER 3.3 16.5 + - - +
761A SER* 3.9 13.2 - - - +
762A GLN 3.5 0.2 - - - -
763A VAL* 1.4 74.3 - - + +
765A SER* 1.4 56.6 + - - +
767A LEU* 3.3 7.7 + - - +
768A LYS* 3.1 55.9 + - - +
802A THR* 3.5 32.8 - - - +
803A VAL* 4.7 9.2 - - + +
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Residues in contact with SER 765 (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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761A SER 3.1 19.4 + - - -
762A GLN* 3.3 9.7 + - - +
764A ILE* 1.4 73.2 - - - +
766A GLN* 1.3 64.3 + - - +
768A LYS* 3.7 6.2 + - - +
769A GLN* 3.2 39.7 + - - +
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Residues in contact with GLN 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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749A ILE* 3.4 21.7 - - + +
752A LEU* 6.2 4.5 - - + -
762A GLN* 2.8 39.7 + - + +
763A VAL* 3.4 9.9 - - + +
765A SER* 1.3 72.5 - - - +
767A LEU* 1.4 62.8 + - - +
769A GLN* 3.6 23.3 + - - +
770A LYS* 3.4 31.7 + - - +
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Residues in contact with LEU 767 (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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745A VAL* 3.8 26.9 - - + -
749A ILE* 3.8 10.5 - - + +
763A VAL 2.7 15.8 + - - +
764A ILE 3.4 10.1 - - - +
765A SER 3.2 0.4 - - - -
766A GLN* 1.4 69.0 - - - +
768A LYS* 1.4 60.5 - - - +
769A GLN 3.1 1.8 - - - -
770A LYS* 3.0 21.1 + - - +
771A LEU* 3.2 38.9 + - + +
801A CYS* 4.0 5.4 - - + +
802A THR* 3.5 37.7 - - - +
803A VAL* 3.9 19.5 - - + -
811A LEU* 4.2 14.8 - - + -
813A LEU* 5.3 2.2 - - + -
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Residues in contact with LYS 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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764A ILE* 3.1 36.6 + - - +
765A SER* 4.2 5.8 - - - +
767A LEU* 1.4 75.8 - - + +
769A GLN* 1.4 56.4 + - - +
771A LEU* 3.5 5.3 + - - -
772A GLU* 3.0 39.0 + - - +
798A ILE* 3.4 31.1 - - + +
799A GLU* 2.8 32.2 + - + +
801A CYS 2.8 30.2 + - - +
802A THR* 5.0 1.0 - - - -
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Residues in contact with GLN 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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765A SER* 3.2 37.3 + - - +
766A GLN* 3.6 26.6 + - - +
768A LYS* 1.4 74.8 - - - +
770A LYS* 1.4 59.6 + - + +
772A GLU* 3.2 14.0 + - - +
773A ASN* 3.0 40.1 + - - +
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Residues in contact with LYS 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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745A VAL* 4.1 20.0 - - + -
748A ASP* 3.8 36.8 + - + +
749A ILE* 3.9 16.6 - - + -
766A GLN* 3.4 23.8 + - - +
767A LEU 3.0 9.1 + - - +
769A GLN* 1.4 77.8 - - + +
771A LEU* 1.3 56.1 + - - +
773A ASN* 3.5 15.3 + - - +
774A LEU* 2.9 30.6 + - - +
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Residues in contact with LEU 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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742A LEU* 4.8 6.1 - - + -
745A VAL* 4.1 18.2 - - + -
767A LEU* 3.2 49.5 + - + +
768A LYS* 4.0 9.2 - - - +
770A LYS* 1.3 73.9 - - - +
772A GLU* 1.4 57.4 + - - +
774A LEU* 3.4 12.5 - - + +
775A GLN* 2.9 35.7 + - - +
796A LEU* 4.3 12.7 - - + +
798A ILE* 3.7 22.0 - - + +
801A CYS* 3.9 23.6 - - + -
813A LEU* 4.4 14.8 - - + -
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Residues in contact with GLU 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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768A LYS* 3.0 24.7 + - - +
769A GLN* 3.2 15.3 + - - +
771A LEU* 1.4 75.5 - - - +
773A ASN* 1.4 63.7 + - - +
775A GLN* 4.4 0.7 - - - +
776A ASN* 3.3 28.4 + - - +
798A ILE* 3.8 28.4 - - + +
799A GLU* 4.1 11.6 - - - +
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Residues in contact with ASN 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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769A GLN* 3.0 26.3 + - - +
770A LYS* 3.5 18.1 - - - +
772A GLU* 1.4 78.3 - - - +
774A LEU* 1.4 57.1 + - - +
776A ASN 3.0 18.2 - - - +
777A SER 3.1 16.5 + - - +
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Residues in contact with LEU 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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741A MET* 3.9 43.7 - - + +
742A LEU* 4.9 7.6 - - + -
745A VAL* 3.7 26.9 - - + -
770A LYS 2.9 18.5 + - - +
771A LEU* 3.1 17.5 + - + +
773A ASN* 1.4 77.2 - - - +
775A GLN* 1.3 64.8 + - - +
776A ASN 3.3 1.0 + - - -
777A SER 4.9 0.9 - - - -
778A GLN* 3.4 30.7 + - - +
779A LEU* 3.9 16.8 - - + -
796A LEU* 5.4 2.2 - - + -
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Residues in contact with GLN 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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771A LEU 2.9 18.6 + - - +
772A GLU 4.4 3.4 - - - +
774A LEU* 1.3 72.6 - - - +
776A ASN* 1.3 70.2 + - - +
777A SER* 4.1 4.2 + - - -
778A GLN* 4.5 3.5 - - - +
779A LEU* 2.8 39.2 + - + +
780A PRO 4.7 0.9 - - - +
781A GLU* 5.3 8.7 + - - +
794A GLY 4.7 1.2 + - - -
795A ALA* 3.5 18.6 - - + +
796A LEU* 3.2 39.0 + - + +
798A ILE* 4.5 12.3 - - + -
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Residues in contact with ASN 776 (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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772A GLU 3.3 15.3 + - - +
773A ASN* 3.0 14.7 - - - +
775A GLN* 1.3 86.7 + - - +
777A SER* 1.3 59.7 + - - +
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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