Contacts of the helix formed by residues 758 - 773 (chain A) in PDB entry 2ZNT
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 PRO 758 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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756A GLY 3.4 5.3 - - - +
757A SER* 1.3 88.4 - - - +
759A TYR* 1.3 78.8 + - + +
760A ARG 3.3 1.0 + - - -
761A ASP* 4.1 5.1 + - - +
762A LYS* 3.8 28.1 + - - +
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Residues in contact with TYR 759 (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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3A BME 3.5 45.4 - - + -
417A ARG* 4.1 7.8 + - - -
419A LEU* 3.7 38.9 - - + +
496A ASP* 4.3 15.9 - - + -
497A LEU* 4.3 10.1 - - + -
753A THR* 4.8 0.2 - - + -
757A SER* 3.1 14.9 + - - +
758A PRO* 1.3 97.0 - - + +
760A ARG* 1.3 64.7 + - - +
762A LYS* 3.2 6.3 + - + +
763A ILE* 2.9 37.5 + - + +
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Residues in contact with ARG 760 (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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513A ASP* 3.7 31.7 + - + +
514A PHE* 2.8 50.8 + - - +
515A SER* 3.7 7.3 - - - +
753A THR* 3.7 25.8 - - + +
757A SER* 3.4 12.8 + - - +
758A PRO 3.3 2.2 - - - -
759A TYR* 1.3 77.8 - - - +
761A ASP* 1.3 79.4 + - - +
763A ILE* 3.2 5.1 + - - +
764A THR* 3.0 27.6 + - - -
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Residues in contact with ASP 761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757A SER 4.8 0.9 + - - -
758A PRO 4.1 6.0 + - - +
759A TYR 3.3 0.4 - - - -
760A ARG* 1.3 103.3 + - - +
762A LYS* 1.3 66.4 + - + +
764A THR* 3.2 8.8 + - - -
765A ILE* 3.0 33.2 + - + +
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Residues in contact with LYS 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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3A BME 3.8 25.6 - - + -
460A LEU* 3.7 24.2 - - + +
758A PRO* 3.8 25.8 + - - +
759A TYR* 3.2 11.3 + - + +
761A ASP* 1.3 77.3 - - + +
763A ILE* 1.3 63.9 + - - +
765A ILE* 3.2 14.1 + - + +
766A ALA* 3.0 22.7 + - - +
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Residues in contact with ILE 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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3A BME 4.8 2.9 - - - -
456A LEU* 4.1 14.8 - - + -
460A LEU* 3.8 19.7 - - + -
462A PHE* 5.5 1.3 - - + -
497A LEU* 3.2 44.4 - - + -
515A SER* 4.0 3.1 - - - -
751A VAL* 3.9 28.0 - - + -
753A THR* 4.6 3.1 - - + -
759A TYR* 2.9 27.1 + - + +
760A ARG 3.6 4.5 - - - +
762A LYS* 1.3 74.3 - - - +
764A THR* 1.3 65.3 + - - +
766A ALA* 3.2 2.3 + - - +
767A ILE* 2.9 39.8 + - + +
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Residues in contact with THR 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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515A SER* 3.3 12.1 - - - -
516A LYS* 2.9 58.8 + - + +
760A ARG* 3.0 14.2 + - - -
761A ASP* 3.2 13.0 + - - +
763A ILE* 1.3 76.8 - - - +
765A ILE* 1.3 59.3 + - + +
767A ILE* 3.2 7.3 + - - +
768A LEU* 2.9 38.1 + - + +
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Residues in contact with ILE 765 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A ILE* 6.3 1.1 - - + -
460A LEU* 6.0 1.8 - - + -
761A ASP* 3.0 23.6 + - + +
762A LYS* 3.2 13.7 + - + +
764A THR* 1.3 78.3 - - + +
766A ALA* 1.3 58.7 + - - +
768A LEU* 3.3 14.2 + - + +
769A GLN* 3.0 28.9 + - + +
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Residues in contact with ALA 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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456A LEU* 3.5 24.0 - - + -
459A ILE* 3.8 34.2 - - + +
460A LEU* 3.9 11.9 - - + +
762A LYS 3.0 12.9 + - - +
763A ILE 3.2 4.0 + - - +
765A ILE* 1.3 74.1 - - - +
767A ILE* 1.3 58.1 + - - +
769A GLN* 3.1 5.1 + - - +
770A LEU* 2.9 31.9 + - - +
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Residues in contact with ILE 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A BME 4.0 9.4 - - - +
452A LEU* 4.9 5.6 - - + -
456A LEU* 4.1 12.1 - - + -
515A SER* 3.3 28.9 - - - +
516A LYS* 3.6 11.2 - - + +
517A PRO 3.7 20.4 - - - +
518A PHE* 4.0 25.4 - - + -
751A VAL* 4.4 8.3 - - + -
763A ILE* 2.9 27.0 + - + +
764A THR* 3.5 7.9 - - - +
766A ALA* 1.3 74.4 - - - +
768A LEU* 1.3 60.3 + - + +
770A LEU* 3.2 9.8 + - - +
771A GLN* 2.9 27.2 + - - +
776A LEU* 4.0 5.5 - - + +
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Residues in contact with LEU 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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2A BME 4.2 14.8 - - - +
516A LYS* 4.3 23.6 - - + -
764A THR* 2.9 35.3 + - + +
765A ILE* 3.5 15.5 - - + +
766A ALA 3.2 0.2 - - - -
767A ILE* 1.3 77.6 - - + +
769A GLN* 1.3 56.6 + - - +
771A GLN* 3.3 8.0 + - + +
772A GLU* 2.9 28.9 + - - +
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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
----------------------------------------------------------
459A ILE* 3.6 38.5 - - + +
765A ILE* 3.0 15.3 + - + +
766A ALA* 3.1 9.4 + - - +
768A LEU* 1.3 73.9 - - - +
770A LEU* 1.3 66.3 + - - +
772A GLU* 3.2 16.6 + - - +
773A GLU* 2.9 57.3 + - + +
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Residues in contact with LEU 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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452A LEU* 3.8 24.9 - - + -
455A GLU* 3.7 33.0 - - + +
456A LEU* 4.2 13.5 - - + -
459A ILE* 3.6 20.9 - - + -
766A ALA 2.9 18.9 + - - +
767A ILE* 3.2 7.8 + - - +
769A GLN* 1.3 75.4 - - - +
771A GLN* 1.3 61.1 + - - +
773A GLU* 3.4 7.2 + - - +
774A GLY 3.2 2.6 + - - -
775A LYS* 2.9 56.4 + - + +
776A LEU* 3.5 16.7 + - + -
779A MET* 4.7 1.3 - - + -
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Residues in contact with GLN 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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2A BME 3.7 29.3 - - + +
767A ILE 2.9 13.5 + - - +
768A LEU* 3.5 10.5 - - + +
770A LEU* 1.3 74.6 - - - +
772A GLU* 1.3 66.0 + - - +
774A GLY* 3.0 16.1 + - - -
776A LEU* 3.6 26.7 - - + +
777A HIS* 4.9 5.1 + - - +
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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 LEU 2.9 13.3 + - - +
769A GLN* 3.4 21.9 - - - +
771A GLN* 1.3 77.7 - - - +
773A GLU* 1.3 62.6 + - + +
774A GLY 3.2 0.9 + - - -
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Residues in contact with GLU 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
459A ILE* 4.9 0.3 - - - +
769A GLN* 2.9 50.8 + - + +
770A LEU* 3.8 15.1 - - - +
771A GLN 3.1 0.4 - - - -
772A GLU* 1.3 81.2 - - + +
774A GLY* 1.3 58.0 + - - +
775A LYS* 3.2 38.0 + - + +
778A MET* 3.4 14.0 - - - +
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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
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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