Contacts of the strand formed by residues 757 - 763 (chain B) in PDB entry 2HRC
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 VAL 757 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A LEU* 3.5 33.9 - - + -
755B GLU 4.0 2.0 - - - +
756B VAL* 1.3 72.6 - - - +
758B ILE* 1.3 71.1 + - - +
759B LEU* 4.6 4.0 - - + -
796B PRO* 3.8 7.4 - - + +
822B LEU* 4.0 25.8 - - + -
827B ARG* 3.7 46.2 - - + +
829B ASN 2.9 11.8 + - - +
830B ILE* 3.4 6.9 - - + +
831B LEU 2.9 24.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 758 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741B ILE* 4.3 20.4 - - + -
745B LEU* 5.0 3.4 - - + -
756B VAL* 4.8 2.2 - - + -
757B VAL* 1.3 75.3 - - - +
759B LEU* 1.3 62.6 + - - +
760B PHE* 3.6 25.1 - - + -
788B MET* 4.3 20.6 - - + -
791B LEU* 4.6 3.8 - - + -
794B CYS* 5.2 0.7 - - - -
795B ASN* 3.8 28.0 - - + +
796B PRO 2.9 14.1 + - - +
797B TYR* 3.1 25.1 - - + +
798B ARG 3.2 6.2 + - - +
831B LEU* 3.5 15.9 - - + +
833B VAL* 3.7 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 759 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404A PRO* 4.8 2.5 - - + -
757B VAL* 3.7 4.2 + - + -
758B ILE* 1.3 74.8 - - - +
760B PHE* 1.3 63.2 + - - +
761B SER* 3.5 1.9 + - - -
798B ARG* 3.5 25.8 - - + -
800B VAL* 4.0 24.5 - - + -
815B THR 4.7 0.2 - - - +
818B SER* 4.4 7.9 - - - -
819B ILE* 3.7 34.8 - - + +
822B LEU* 3.8 31.9 - - + -
830B ILE* 3.9 11.9 - - + -
831B LEU 2.8 10.4 + - - +
832B LEU* 3.5 16.4 - - + +
833B VAL 2.9 24.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 760 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741B ILE* 4.0 3.1 - - + -
758B ILE* 3.6 19.7 - - + -
759B LEU* 1.3 72.4 - - - +
761B SER* 1.3 57.8 + - - +
784B VAL* 3.6 37.7 - - + -
787B VAL* 4.0 21.5 - - + -
788B MET* 3.6 35.9 - - + -
797B TYR* 3.8 9.2 - + + -
798B ARG 3.0 15.8 + - - +
799B LEU* 3.5 7.3 - - + -
800B VAL* 2.8 29.9 + - - +
833B VAL* 3.3 24.0 - - + +
835B ILE* 3.7 34.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 761 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
759B LEU 3.5 5.1 + - - -
760B PHE* 1.3 74.8 - - - +
762B ALA* 1.3 61.7 + - - +
800B VAL* 3.3 4.0 - - - -
802B GLN* 2.7 28.5 + - - +
815B THR* 2.7 36.6 + - - +
832B LEU* 5.6 2.2 - - - -
833B VAL 2.9 13.6 + - - -
834B PRO* 3.3 6.8 - - - +
835B ILE* 3.0 24.4 + - - +
836B ALA 4.3 0.5 + - - -
848B LEU* 4.9 7.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 762 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
761B SER* 1.3 75.4 + - - +
763B HIS* 1.3 66.7 + - - +
764B SER 3.2 0.2 + - - -
776B TYR* 3.5 14.4 - - - +
780B VAL* 4.0 12.3 - - + -
799B LEU* 4.7 1.1 - - + +
800B VAL 3.2 6.2 + - - +
801B TRP* 3.2 26.2 - - + +
802B GLN* 2.9 24.0 + - - -
835B ILE* 4.1 2.2 - - + -
836B ALA* 3.7 18.2 - - + -
843B GLU* 5.3 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 763 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
762B ALA* 1.3 72.4 - - - +
764B SER* 1.3 89.1 + - - +
776B TYR* 2.8 34.0 + - - +
801B TRP* 3.7 0.9 - - - -
802B GLN* 3.6 9.2 - - - -
803B SER* 3.4 27.1 - - - -
810B TRP* 4.0 9.4 - + - -
836B ALA* 4.8 2.0 - - + +
843B GLU* 3.1 33.3 + - + +
1602B IMD 3.5 39.6 + + + +
1605B CHD 3.4 39.3 + - + +
----------------------------------------------------------
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