Contacts of the helix formed by residues 754 - 780 (chain B) in PDB entry 5WRZ
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 ASN 754 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
756A ASP* 6.0 2.0 - - - +
720B VAL* 4.9 8.9 - - - +
752B LEU 3.6 0.8 - - - -
753B ASN* 1.3 96.1 + - - +
755B ALA* 1.3 65.4 + - - +
756B ASP* 3.5 12.6 + - - +
757B SER* 2.8 31.7 + - - -
758B VAL* 3.2 25.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 755 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720B VAL* 5.8 2.0 - - - +
754B ASN* 1.3 76.0 - - + +
756B ASP* 1.3 65.1 + - - +
757B SER 3.2 0.3 + - - -
758B VAL* 3.4 5.6 + - - +
759B GLN* 3.1 36.8 + - - +
887B THR* 5.5 12.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 756 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720A VAL* 5.5 8.9 - - - +
754B ASN* 3.4 13.5 + - - +
755B ALA* 1.3 80.1 - - - +
757B SER* 1.3 57.6 + - - +
759B GLN* 3.6 16.1 + - - +
760B ALA* 3.1 28.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 757 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
751B LEU 2.8 20.1 + - - -
752B LEU* 3.7 28.9 - - - +
753B ASN* 3.8 2.2 + - - -
754B ASN* 2.8 27.9 + - - -
756B ASP* 1.3 72.9 - - - +
758B VAL* 1.3 61.8 + - - +
760B ALA* 3.4 5.5 + - - +
761B LYS* 3.0 33.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 758 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
713B LEU* 3.9 24.5 - - + +
716B VAL* 3.7 33.0 - - + -
717B GLN* 4.9 7.9 - - + +
720B VAL* 6.1 0.9 - - + -
752B LEU* 5.2 3.1 - - + +
754B ASN 3.2 16.0 + - - +
755B ALA* 3.8 5.8 - - - +
757B SER* 1.3 80.4 - - - +
759B GLN* 1.3 59.3 + - - +
761B LYS* 3.4 2.2 + - - +
762B ALA* 2.8 27.5 + - - +
885B PRO* 4.1 26.5 - - + -
887B THR* 5.0 6.3 - - + +
888B GLY* 4.3 10.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 759 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
755B ALA* 3.1 30.4 + - - +
756B ASP* 3.9 14.1 + - - +
757B SER 3.3 0.2 - - - -
758B VAL* 1.3 75.5 - - - +
760B ALA* 1.3 59.6 + - - +
762B ALA* 3.2 1.9 + - - +
763B GLU* 2.9 37.0 + - - +
887B THR 4.1 7.0 - - - +
888B GLY* 3.4 35.4 + - - +
889B TYR* 5.3 2.2 - - - +
890B MET* 5.6 6.3 - - - +
937B HIS* 5.6 3.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 760 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B TYR* 5.9 0.2 - - - -
756B ASP 3.1 15.5 + - - +
757B SER* 3.8 6.1 - - - +
759B GLN* 1.3 79.6 - - - +
761B LYS* 1.3 61.4 + - + +
763B GLU* 3.4 10.4 + - - +
764B MET* 3.0 26.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 761 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B TYR 5.4 2.0 + - - -
713B LEU* 3.7 21.3 - - + -
736B PHE* 3.8 24.9 - - + -
737B TYR* 3.4 30.0 + - - -
742B HIS* 4.1 19.8 + - - -
744B PHE* 5.9 3.2 - - - -
750B PRO 5.1 0.2 - - - -
752B LEU* 3.5 23.6 - - + -
757B SER 3.0 21.3 + - - +
758B VAL 3.9 0.7 - - - +
760B ALA* 1.3 83.3 - - + +
762B ALA* 1.3 55.3 + - - +
764B MET* 3.2 15.5 + - + +
765B LEU* 2.9 32.1 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
710B TYR* 4.0 3.3 - - + -
713B LEU* 3.6 13.6 - - + +
758B VAL 2.8 21.5 + - - +
759B GLN* 3.5 7.9 - - - +
761B LYS* 1.3 71.7 - - - +
763B GLU* 1.3 57.5 + - - +
765B LEU* 3.2 5.8 + - - +
766B ASP* 3.0 35.3 + - - +
885B PRO* 4.6 7.2 - - + -
888B GLY* 4.3 8.7 - - - +
889B TYR* 3.9 25.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 763 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
759B GLN* 2.9 23.6 + - - +
760B ALA* 3.5 8.7 - - - +
762B ALA* 1.3 74.2 - - - +
764B MET* 1.3 66.1 + - - +
765B LEU 3.2 0.2 + - - -
766B ASP* 3.3 11.6 + - + +
767B ASN* 3.0 37.4 + - - +
865B ARG* 5.6 1.1 - - - +
889B TYR* 5.0 3.5 - - + -
907B TYR* 4.1 9.4 - - - -
909B HIS* 4.1 20.7 + - - +
1101B 7U3 3.3 35.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 764 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B TYR* 3.9 58.1 - - + +
691B ILE* 4.1 11.7 - - - -
736B PHE* 3.7 35.9 - - + -
740B ILE* 4.6 4.3 - - + -
742B HIS* 4.3 16.2 - - + +
760B ALA 3.0 15.0 + - - +
761B LYS* 3.2 19.0 + - + +
763B GLU* 1.3 76.0 - - - +
765B LEU* 1.3 69.7 + - + +
767B ASN* 3.2 4.3 + - - +
768B LEU* 2.9 33.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 765 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706B ILE* 3.9 14.0 - - + +
709B ALA* 3.7 22.4 - - + -
710B TYR* 3.4 60.0 + - + +
713B LEU* 3.9 13.9 - - + -
736B PHE* 4.1 5.2 - - + -
740B ILE* 4.5 6.1 - - + -
761B LYS 2.9 16.4 + - - +
762B ALA 3.6 2.2 - - - +
763B GLU 3.2 0.4 - - - -
764B MET* 1.3 92.0 - - + +
766B ASP* 1.3 56.2 + - - +
767B ASN 3.1 1.1 - - - -
768B LEU* 3.2 16.3 + - + +
769B LEU* 2.8 34.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 766 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710B TYR* 2.5 29.0 + - - -
762B ALA 3.0 16.0 + - - +
763B GLU* 3.3 12.7 - - + +
765B LEU* 1.3 74.4 - - - +
767B ASN* 1.3 68.6 + - - +
769B LEU* 3.3 13.1 + - - +
770B ASP* 3.4 18.5 + - - +
880B ALA* 4.2 8.2 - - - +
889B TYR* 2.7 37.8 + - - -
1101B 7U3 5.1 8.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 767 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B TYR* 2.7 32.0 + - + +
763B GLU* 3.0 27.9 + - - +
764B MET 3.5 6.3 - - - +
766B ASP* 1.3 79.9 - - - +
768B LEU* 1.3 62.4 + - - +
770B ASP 3.3 3.1 + - - -
771B ILE* 3.1 27.2 + - + +
865B ARG* 3.2 25.6 - - + +
867B THR* 5.8 0.7 - - - +
868B ASN* 3.0 34.0 + - - +
909B HIS* 5.4 0.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 768 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
686B MET* 4.0 18.4 - - + -
689B TYR* 4.9 7.0 - - + -
691B ILE* 4.0 31.2 - - + -
701B LEU* 3.9 27.7 - - + +
706B ILE* 3.6 18.2 - - + +
740B ILE* 4.8 9.4 - - + -
764B MET* 2.9 31.4 + - + +
765B LEU* 3.2 24.0 + - + +
767B ASN* 1.3 77.5 - - - +
769B LEU* 1.3 61.2 + - - +
771B ILE* 3.3 12.2 + - + +
772B GLU* 3.0 18.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 769 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B LYS* 4.2 26.0 - - + +
706B ILE* 3.9 29.6 - - + +
707B GLN* 5.4 4.9 - - + +
710B TYR* 4.5 8.7 - - + +
765B LEU 2.8 14.6 + - - +
766B ASP* 3.3 12.1 + - - +
768B LEU* 1.3 72.0 - - - +
770B ASP* 1.3 60.5 + - - +
772B GLU* 3.3 4.8 + - - +
773B VAL* 3.0 35.3 + - + +
878B ARG* 4.3 24.7 - - - +
879B ILE 6.1 0.7 - - - +
881B PRO* 4.4 25.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 770 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
766B ASP 3.4 10.1 + - - +
767B ASN 3.3 1.6 + - - +
768B LEU 3.3 0.2 - - - -
769B LEU* 1.3 75.3 - - - +
771B ILE* 1.3 60.5 + - - +
773B VAL* 3.4 7.0 + - - +
774B ALA* 3.0 27.7 + - - +
867B THR 4.3 3.1 - - - +
868B ASN* 3.5 53.3 + - - +
871B GLY* 4.3 11.2 + - - -
872B ILE* 4.8 6.4 - - - +
878B ARG* 2.4 35.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 771 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682B MET* 4.0 21.3 - - + +
685B ALA* 4.2 17.7 - - + -
686B MET* 4.7 3.4 - - + -
689B TYR* 5.7 2.0 - - + -
698B LEU* 3.7 28.9 - - + -
701B LEU* 4.2 7.6 - - + -
767B ASN* 3.1 21.9 + - + +
768B LEU* 3.6 20.9 - - + +
769B LEU 3.3 0.2 - - - -
770B ASP* 1.3 73.2 - - - +
772B GLU* 1.3 59.2 + - - +
774B ALA* 3.2 4.1 + - - +
775B TYR* 2.9 27.9 + - - +
867B THR* 3.7 37.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 772 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698B LEU* 6.2 0.4 - - - -
701B LEU* 3.8 30.0 - - + +
702B SER* 4.2 1.4 - - - -
703B LYS* 4.0 43.6 + - - +
706B ILE* 4.3 9.9 - - + -
768B LEU 3.0 13.9 + - - +
769B LEU* 3.7 7.4 - - + +
771B ILE* 1.3 73.4 - - - +
773B VAL* 1.3 79.6 + - - +
775B TYR* 3.5 4.8 + - - +
776B SER* 2.9 37.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 773 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703B LYS* 5.7 5.2 - - - -
769B LEU* 3.0 23.7 + - + +
770B ASP* 3.6 9.6 - - - +
771B ILE 3.3 0.2 - - - -
772B GLU* 1.3 86.6 + - - +
774B ALA* 1.3 57.5 + - - +
776B SER* 2.9 20.6 + - - +
777B LEU* 2.9 21.1 + - + +
871B GLY* 3.8 22.2 - - - +
874B SER* 4.1 11.7 - - - +
875B GLN* 4.3 12.6 - - + +
878B ARG* 4.2 23.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 774 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676B ILE 5.1 0.9 - - - +
677B PHE* 4.2 4.9 - - + -
682B MET* 4.0 20.4 - - + -
770B ASP 3.0 17.4 + - - +
771B ILE* 3.2 6.9 + - - +
773B VAL* 1.3 74.6 - - - +
775B TYR* 1.3 66.1 + - - +
777B LEU* 3.2 7.9 + - - +
778B LEU* 3.0 23.7 + - - +
867B THR 4.9 6.1 - - - +
870B ALA* 3.7 29.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 775 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679B VAL* 4.5 9.2 - - + -
682B MET* 4.2 12.9 - - - -
683B LYS* 6.3 0.2 - - - -
698B LEU* 3.5 39.9 - - + +
699B GLY* 3.6 34.4 + - - -
771B ILE 2.9 16.3 + - - +
772B GLU* 4.1 4.7 - - - +
774B ALA* 1.3 75.8 - - - +
776B SER* 1.3 60.0 + - - +
778B LEU* 3.3 6.5 + - + +
779B ARG* 3.0 77.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 776 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
772B GLU* 2.9 31.8 + - - -
773B VAL* 2.9 18.7 + - - +
775B TYR* 1.3 78.3 - - - +
777B LEU* 1.3 59.3 + - - +
779B ARG* 4.4 4.0 - - - +
780B GLY* 2.8 27.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 777 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677B PHE* 4.4 22.7 - - + -
773B VAL* 2.9 17.5 + - + +
774B ALA* 3.5 10.5 - - - +
776B SER* 1.3 82.8 + - - +
778B LEU* 1.3 60.7 + - - +
780B GLY* 3.3 9.8 + - - +
796B LYS* 3.1 51.1 + - + +
797B LEU* 4.9 0.9 - - + -
870B ALA 4.2 7.9 - - - +
874B SER* 3.7 31.4 - - - +
875B GLN* 5.7 4.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 778 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677B PHE* 3.9 24.9 - - + +
679B VAL* 3.6 30.7 - - + -
682B MET* 4.4 11.0 - - + -
774B ALA 3.0 13.0 + - - +
775B TYR* 3.5 8.5 - - + +
776B SER 3.2 0.2 - - - -
777B LEU* 1.3 78.8 - - - +
779B ARG* 1.3 80.6 + - - +
780B GLY 3.9 0.9 - - - +
793B ASN* 3.8 31.9 - - - +
796B LYS* 3.2 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 779 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679B VAL* 4.2 14.6 - - - +
775B TYR* 3.0 69.9 + - + +
776B SER* 3.7 4.3 - - - +
778B LEU* 1.3 96.2 + - - +
780B GLY* 1.3 62.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 780 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
776B SER 2.8 19.0 + - - -
777B LEU* 3.3 8.3 + - - -
778B LEU 3.9 0.9 - - - +
779B ARG* 1.3 81.5 - - - +
781B GLY* 1.3 65.7 + - - -
782B SER 3.9 1.6 + - - +
796B LYS* 3.3 19.5 + - - -
----------------------------------------------------------
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