Contacts of the strand formed by residues 767 - 775 (chain A) in PDB entry 4ZG9
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 HIS 767 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A GLN 4.5 11.5 + - - -
428A HIS* 5.9 0.6 - - - -
429A LEU 5.4 0.8 + - - -
431A LYS* 3.5 38.9 - - + +
738A ILE* 3.1 34.9 + - + +
740A ASP* 4.9 3.8 - - + -
765A PRO* 3.4 7.8 - - - +
766A THR* 1.3 110.0 + - - +
768A TYR* 1.3 71.3 + - - +
795A ILE* 3.6 28.7 - - + -
796A LEU 3.1 9.0 - - - +
797A PRO* 3.5 33.3 - - + +
798A HIS* 4.1 2.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 768 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681A LEU* 4.5 8.5 - - + -
703A VAL* 3.4 29.9 - - + +
704A PRO 2.5 29.7 + - - -
705A MET* 4.3 9.0 - - + -
709A PHE* 3.6 34.1 - + + -
713A TRP* 4.4 12.3 - + + -
736A GLY 3.4 17.0 - - - +
737A PRO* 3.7 20.6 - - + -
738A ILE* 5.0 0.4 - - - -
765A PRO* 3.3 19.6 - - + +
767A HIS* 1.3 80.8 - - - +
769A TYR* 1.3 61.2 + - - +
794A PHE* 4.0 3.8 - - - +
795A ILE* 3.7 1.3 - - - -
796A LEU* 2.9 32.6 + - - +
798A HIS* 3.8 25.6 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 769 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
630A LEU 2.9 19.4 + - - -
631A TRP* 3.3 17.2 - - - +
713A TRP* 4.5 3.2 - - - -
734A ILE* 3.9 15.7 - - + -
735A SER* 3.2 21.7 - - - -
736A GLY* 2.9 52.5 + - - +
737A PRO 3.7 7.4 - - - -
738A ILE* 3.9 19.9 - - + +
768A TYR* 1.3 75.1 - - - +
770A SER* 1.3 75.0 + - - +
771A ILE* 4.0 4.0 - - + -
794A PHE* 3.2 13.5 - - - +
795A ILE* 4.4 0.7 - - + -
830A ILE* 3.6 43.3 - - + -
834A THR* 3.8 11.2 - - + -
836A LEU* 3.7 7.4 - - - +
838A PHE* 4.0 8.8 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 770 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713A TRP* 3.9 2.9 - - - -
716A PHE* 3.8 16.6 - - - -
733A VAL* 4.8 1.3 - - - -
734A ILE 3.2 7.2 - - - -
735A SER* 2.8 25.4 + - - -
769A TYR* 1.3 76.4 + - - +
771A ILE* 1.3 63.8 + - - +
772A ILE* 4.1 6.3 - - - -
793A SER* 3.1 6.9 - - - -
794A PHE* 3.0 59.0 + - - +
830A ILE* 4.2 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 771 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
732A ASN 3.5 1.7 - - - +
733A VAL* 3.4 4.5 - - - -
734A ILE* 2.9 37.7 + - + +
769A TYR* 4.0 8.1 - - + -
770A SER* 1.3 77.6 - - - +
772A ILE* 1.3 62.6 + - - +
773A THR* 4.0 9.8 + - - +
791A VAL* 3.7 13.2 - - + -
792A SER 3.9 2.9 - - - -
793A SER* 4.0 2.5 - - - -
827A VAL* 3.6 28.9 - - + -
830A ILE* 3.8 21.5 - - + -
838A PHE* 3.7 49.8 - - + -
839A PHE* 4.4 7.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 772 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A PHE* 3.8 25.4 - - + -
721A VAL* 5.5 0.4 - - + -
724A TYR* 3.8 30.1 - - + -
728A ARG* 3.1 26.2 + - - +
731A VAL* 3.7 27.6 - - + -
732A ASN 3.3 3.4 - - - +
733A VAL* 4.3 11.7 - - + -
770A SER* 4.6 4.9 - - - -
771A ILE* 1.3 80.8 - - - +
773A THR* 1.3 62.3 + - - +
791A VAL* 3.3 1.5 - - - -
792A SER* 2.8 45.3 + - - +
794A PHE* 4.2 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 773 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A TYR* 3.5 42.4 + - + -
728A ARG* 3.7 0.9 - - - -
731A VAL* 3.4 2.9 - - - -
732A ASN* 2.8 40.3 + - - +
734A ILE* 5.8 2.3 - - - +
771A ILE* 4.0 18.4 + - - +
772A ILE* 1.3 77.8 - - - +
774A SER* 1.3 70.1 + - - +
782A ALA* 4.5 0.9 - - - +
789A LEU* 4.5 7.2 - - + -
790A SER 3.3 10.1 - - - +
791A VAL* 4.2 5.3 - - + +
839A PHE* 3.8 21.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 774 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A TYR* 4.3 6.3 - - - -
728A ARG* 3.3 39.7 + - - +
730A GLY 3.7 17.7 - - - -
773A THR* 1.3 76.9 - - - +
775A CYS* 1.3 75.4 + - - +
782A ALA* 4.5 7.4 - - - -
785A CYS* 4.5 2.9 - - - -
789A LEU* 3.5 10.2 - - - +
790A SER* 2.7 33.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 775 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
728A ARG 4.8 1.2 + - - +
774A SER* 1.3 87.1 + - - +
776A LEU* 1.3 68.0 + - - +
777A ASP* 3.4 26.7 - - - +
778A PHE* 3.8 10.3 + - - +
780A GLN* 3.6 23.6 - - - +
781A PRO 4.5 1.6 - - - +
782A ALA* 4.7 4.0 - - - +
785A CYS* 2.1 53.9 - - - -
786A ASP 4.3 2.0 - - - -
787A GLY* 4.7 3.4 - - - -
788A PRO 4.1 4.7 - - - -
790A SER* 4.0 3.8 - - - -
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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