Contacts of the helix formed by residues 757 - 773 (chain A) in PDB entry 3BWT
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 PHE 757 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A ALA 3.9 2.5 - - - -
718A THR 3.7 14.4 - - - +
719A HIS 3.7 15.5 - - - +
720A ARG* 3.4 80.3 - - + -
723A CYS* 3.9 17.1 - - + +
755A ASP* 2.7 12.0 + - - +
756A PRO* 1.3 95.2 - - + +
758A GLY* 1.3 62.1 + - - +
759A ASN 3.2 2.0 - - - -
760A TYR* 3.2 26.9 + + - +
761A VAL 3.7 3.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 758 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A ALA 3.6 14.9 + - - -
752A LEU* 3.0 27.4 - - - +
755A ASP* 2.6 19.5 + - - -
757A PHE* 1.3 70.6 - - - +
759A ASN* 1.3 64.8 + - - +
761A VAL* 3.0 16.3 + - - +
762A VAL* 3.1 14.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 759 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752A LEU 2.8 11.0 + - - -
753A THR* 3.4 19.1 - - - +
755A ASP 2.8 17.6 + - - +
756A PRO* 2.6 31.5 + - - +
758A GLY* 1.3 76.7 - - - +
760A TYR* 1.3 68.7 + - - +
762A VAL* 3.5 3.7 + - - +
763A GLN* 3.0 52.5 + - - +
797A PHE* 3.7 13.7 - - - +
800A ASN* 3.0 26.8 + - - +
801A VAL* 3.8 9.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 760 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A CYS* 5.1 7.2 - - - -
727A GLN* 3.4 23.4 + - - +
756A PRO 3.5 26.0 - - - -
757A PHE* 3.2 18.3 + + - +
758A GLY 3.1 0.8 - - - -
759A ASN* 1.3 86.9 - - - +
761A VAL* 1.3 59.4 + - - +
763A GLN* 3.3 25.9 + - + +
764A TYR* 2.9 23.6 + - - +
797A PHE* 6.2 0.7 - + - -
800A ASN* 4.3 9.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 761 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A ALA* 3.9 23.1 - - + +
723A CYS* 4.0 22.9 - - + +
726A LEU* 4.0 22.0 - - + -
727A GLN* 4.3 7.0 - - + +
730A LEU* 5.2 5.4 - - + -
745A LEU* 3.9 37.2 - - + -
752A LEU* 5.0 5.4 - - + -
757A PHE 3.7 1.3 + - - +
758A GLY* 3.0 9.5 + - - +
760A TYR* 1.3 74.9 - - - +
762A VAL* 1.3 66.3 + - + +
764A TYR* 3.1 13.4 + - - +
765A ILE* 3.2 17.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 762 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749A VAL* 4.0 23.1 - - + -
752A LEU* 3.5 33.7 - - + -
753A THR* 4.2 9.4 - - - +
758A GLY 3.1 13.9 + - - +
759A ASN* 3.8 7.0 - - - +
761A VAL* 1.3 76.3 - - - +
763A GLN* 1.3 61.6 + - - +
765A ILE* 3.6 17.9 + - + +
766A ILE* 3.7 14.3 - - + +
781A ILE* 3.9 15.8 - - + +
801A VAL* 4.1 26.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 763 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
759A ASN* 3.0 40.5 + - - +
760A TYR* 3.5 29.2 - - + +
762A VAL* 1.3 77.0 - - - +
764A TYR* 1.3 59.8 + - - +
766A ILE* 3.1 7.8 + - - +
767A THR* 2.9 29.1 + - - +
800A ASN* 3.3 27.7 - - - +
801A VAL* 4.2 8.7 - - + -
804A LYS* 3.7 34.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 764 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
727A GLN* 3.3 56.3 - - + -
730A LEU* 4.2 12.1 - - + -
731A ASP* 2.6 37.5 + - - -
760A TYR 2.9 17.5 + - - +
761A VAL 3.1 5.5 + - - +
763A GLN* 1.3 75.0 - - - +
765A ILE* 1.3 65.9 + - - +
767A THR* 3.4 24.3 - - + -
768A LYS* 2.9 42.5 + - + +
771A GLU* 5.0 1.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 765 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A LEU* 3.9 21.7 - - + +
742A CYS* 4.2 17.9 - - + +
745A LEU* 4.2 28.7 - - + -
746A LEU* 5.8 1.6 - - + +
761A VAL* 3.2 16.0 + - + +
762A VAL* 3.7 12.3 - - + +
763A GLN 3.2 0.4 - - - -
764A TYR* 1.3 78.0 - - - +
766A ILE* 1.3 59.0 + - - +
768A LYS* 3.4 4.1 + - - +
769A GLU* 3.1 34.2 + - + +
777A TYR* 3.6 30.5 - - + -
781A ILE* 4.1 20.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 766 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
762A VAL 3.7 15.0 - - - +
763A GLN* 3.1 7.7 + - - +
765A ILE* 1.3 73.9 - - - +
767A THR* 1.3 66.2 + - - +
769A GLU* 3.7 0.9 - - - +
770A ALA* 2.8 24.5 + - + +
775A TYR* 5.8 0.2 - - + -
778A THR* 3.6 31.1 + - + +
781A ILE* 4.0 25.8 - - + -
801A VAL* 5.3 3.1 - - + -
804A LYS* 4.2 15.5 - - + -
805A ILE* 3.9 27.1 - - + -
808A THR* 3.4 35.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 767 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
763A GLN* 2.9 12.5 + - - +
764A TYR* 3.4 32.1 - - + -
766A ILE* 1.3 77.6 - - - +
768A LYS* 1.3 57.2 + - - +
770A ALA* 3.4 5.7 + - - +
771A GLU* 3.0 43.1 + - + +
804A LYS* 2.7 32.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 768 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A LEU* 3.5 23.1 + - + +
731A ASP* 2.9 42.9 + - - +
764A TYR* 2.9 37.9 + - + +
765A ILE* 3.7 6.3 - - - +
767A THR* 1.3 73.4 - - - +
769A GLU* 1.3 67.3 + - + +
771A GLU* 3.1 53.7 + - - +
772A LYS* 3.3 30.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 769 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765A ILE* 3.1 19.1 + - + +
766A ILE 3.8 0.2 - - - +
768A LYS* 1.3 76.1 - - + +
770A ALA* 1.3 56.5 + - - +
772A LYS* 3.2 7.1 + - + +
773A ASN* 3.0 22.5 + - - -
774A LYS 3.4 22.9 + - - +
775A TYR* 3.8 5.5 - - + -
776A ASP* 3.1 24.1 + - - +
777A TYR* 2.8 36.5 + - - -
778A THR* 2.6 43.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 770 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
766A ILE* 2.8 19.4 + - + +
767A THR* 3.6 7.4 - - - +
769A GLU* 1.3 73.8 - - - +
771A GLU* 1.3 67.3 - - - +
773A ASN* 3.3 20.4 + - - -
775A TYR* 3.6 24.3 + - + +
804A LYS* 6.3 0.7 - - - -
808A THR* 4.6 11.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 771 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
764A TYR* 5.0 2.4 + - - -
767A THR* 3.0 34.2 + - + +
768A LYS* 3.1 46.7 + - - +
770A ALA* 1.3 78.2 - - - +
772A LYS* 1.3 64.9 + - + +
773A ASN* 3.6 8.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 772 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A LEU 5.2 4.2 + - - -
735A THR* 5.7 3.2 + - - -
738A CYS* 5.9 4.8 - - - +
768A LYS* 3.3 35.2 + - - +
769A GLU* 3.2 9.4 + - + +
770A ALA 3.2 0.2 - - - -
771A GLU* 1.3 79.7 - - + +
773A ASN* 1.3 73.3 + - - +
774A LYS* 3.3 20.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 773 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769A GLU 3.0 5.0 + - - -
770A ALA 3.3 14.6 + - - -
771A GLU 3.7 7.3 - - - +
772A LYS* 1.3 81.9 - - - +
774A LYS* 1.3 58.2 + - - +
775A TYR* 3.6 28.9 + - + -
----------------------------------------------------------
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