Contacts of the strand formed by residues 766 - 774 (chain A) in PDB entry 2XRG
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 766 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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426A GLN 4.9 9.4 + - - -
427A HIS* 6.1 3.6 - + - -
428A LEU 5.7 1.1 - - - -
430A LYS* 3.7 41.9 + - + +
737A ILE* 3.0 46.6 + - + +
739A ASP* 4.9 4.4 + - + -
764A PRO* 3.5 4.9 - - - +
765A THR* 1.4 108.4 + - - +
767A TYR* 1.4 70.7 + - - +
794A ILE* 3.8 23.0 + - + +
795A LEU 3.3 8.5 - - - +
796A PRO* 3.5 25.6 - - + +
797A HIS 4.1 1.8 - - - +
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Residues in contact with TYR 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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680A LEU* 4.7 8.1 - - + -
702A VAL* 3.9 20.0 - - + +
703A PRO* 2.8 25.5 + - - +
704A MET* 4.2 22.2 - - + -
708A PHE* 4.0 28.3 - + + -
712A TRP* 4.5 14.4 - + + -
735A GLY 3.5 15.7 - - - -
736A PRO* 4.0 16.2 - - + -
737A ILE* 5.2 0.2 - - - -
764A PRO* 3.4 19.9 - - + +
766A HIS* 1.4 76.2 - - - +
768A TYR* 1.4 59.1 + - - +
793A PHE 4.1 0.9 - - - +
794A ILE* 3.7 1.7 - - - -
795A LEU* 2.8 44.4 + - + +
797A HIS* 3.8 32.3 - + + -
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Residues in contact with TYR 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
629A LEU 2.9 21.1 + - - -
630A TRP* 3.5 16.8 - - - +
712A TRP* 4.5 4.7 - - - -
733A ILE* 3.8 24.9 - - + -
734A SER* 3.3 19.7 - - - -
735A GLY* 3.2 45.3 + - - +
736A PRO 3.8 3.1 - - - -
737A ILE* 3.7 30.7 - - + +
766A HIS 4.4 0.6 - - - -
767A TYR* 1.4 73.1 - - - +
769A SER* 1.4 64.3 + - - +
770A ILE* 4.5 2.9 - - + -
793A PHE 3.4 12.6 - - - +
794A ILE* 4.5 1.8 - - + +
829A ILE* 3.7 32.8 - - + -
833A THR* 3.7 18.6 - - + -
835A LEU* 3.9 7.3 - - - +
837A PHE* 4.5 7.2 - + - -
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Residues in contact with SER 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712A TRP* 4.8 5.6 - - - -
715A PHE* 4.0 22.7 - - - -
732A VAL* 3.6 17.7 - - - +
733A ILE 3.4 6.7 - - - -
734A SER* 3.6 14.4 - - - -
768A TYR* 1.4 79.3 - - - +
770A ILE* 1.4 62.7 + - - +
771A ILE* 4.3 3.8 + - - +
792A SER* 3.4 6.4 - - - -
793A PHE* 3.3 40.3 + - - -
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Residues in contact with ILE 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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731A ASN 3.1 13.0 - - - +
732A VAL* 3.4 2.9 - - - -
733A ILE* 2.9 40.4 + - + +
768A TYR* 4.5 6.5 - - + -
769A SER* 1.4 75.4 + - - +
771A ILE* 1.4 62.7 + - - +
772A THR* 3.9 9.2 - - - +
790A VAL* 3.8 18.6 - - + -
792A SER* 3.5 21.3 - - - +
826A VAL* 4.3 12.1 - - + -
829A ILE* 3.8 21.1 - - + -
837A PHE* 3.9 42.8 - - + -
838A TYR* 3.9 8.1 - - + +
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Residues in contact with ILE 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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715A PHE* 4.3 13.7 - - + -
720A VAL* 6.1 0.4 - - + -
723A TYR* 4.1 28.0 - - + -
727A ARG* 3.4 22.9 + - - +
730A VAL* 3.7 29.6 - - + -
731A ASN 3.4 2.9 - - - +
732A VAL* 4.5 14.8 - - + -
769A SER* 4.8 6.5 - - - +
770A ILE* 1.4 76.4 - - - +
772A THR* 1.4 62.1 + - - +
790A VAL* 3.4 5.6 - - - +
791A SER* 3.1 38.8 + - - +
793A PHE* 3.7 31.6 - - + -
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Residues in contact with THR 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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598A TYR* 3.4 35.0 + - + +
727A ARG* 4.1 0.9 - - - -
730A VAL* 3.6 2.8 - - - -
731A ASN* 2.8 41.8 + - - +
733A ILE* 6.0 1.7 - - - +
770A ILE* 3.9 7.1 - - - +
771A ILE* 1.4 75.2 - - - +
773A SER* 1.3 68.0 + - - +
781A ALA* 4.9 0.5 - - - +
788A LEU* 4.3 11.0 - - + -
789A SER 3.4 12.6 - - - +
790A VAL* 3.7 3.8 - - + +
838A TYR* 2.9 34.7 + - + +
851A LEU* 5.3 0.4 - - + -
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Residues in contact with SER 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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598A TYR* 4.4 6.7 - - - -
727A ARG* 2.8 44.5 + - - +
729A GLY 3.4 24.5 - - - -
730A VAL* 4.2 1.1 - - - -
772A THR* 1.3 73.6 - - - +
774A CYS* 1.3 64.5 + - - +
781A ALA* 4.5 6.1 - - - -
788A LEU* 3.5 11.6 - - - +
789A SER* 3.0 27.8 + - - +
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Residues in contact with CYS 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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727A ARG 4.7 5.1 + - - +
728A ASN 5.9 0.2 + - - -
773A SER* 1.3 81.7 + - - +
775A LEU* 1.4 65.4 + - - +
776A ASP* 3.4 26.7 + - - +
777A PHE* 4.1 4.5 + - - +
779A GLN* 4.0 22.2 - - - +
780A PRO 4.2 5.4 - - - +
781A ALA* 4.5 5.6 + - - +
784A CYS* 2.0 59.7 - - + -
785A ASP 4.2 3.1 - - - -
786A GLY 5.0 1.3 - - - -
787A PRO 4.0 1.3 - - - -
789A SER* 4.3 2.1 - - - -
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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