Contacts of the helix formed by residues 759 - 784 (chain A) in PDB entry 6CNC
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 GLU 759 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A ILE* 5.0 1.2 - - - +
745A PHE* 3.5 46.7 - - + -
758A GLU* 1.3 76.3 - - + +
760A GLN* 1.3 60.8 + - - +
761A THR* 3.2 7.3 + - - +
762A LEU* 3.3 19.0 - - + +
763A GLU* 3.1 23.9 + - + +
840A LYS* 3.5 35.1 - - - +
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Residues in contact with GLN 760 (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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755A GLY* 5.1 4.9 - - - +
757A ASN* 2.8 49.9 - - - +
758A GLU 2.5 33.4 + - - +
759A GLU* 1.3 76.7 - - - +
761A THR* 1.3 61.0 + - - +
763A GLU* 3.5 18.4 - - + +
764A ALA* 2.9 31.0 + - - +
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Residues in contact with THR 761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A LEU* 5.8 3.4 - - + -
751A GLU 3.2 23.3 - - - +
752A THR* 3.7 25.8 - - + +
753A GLN* 3.1 35.1 + - + +
755A GLY* 4.8 7.3 + - - -
757A ASN 4.3 11.7 + - - -
758A GLU* 4.4 0.7 - - - -
759A GLU 4.0 5.7 + - - +
760A GLN* 1.3 77.7 - - - +
762A LEU* 1.3 58.8 + - - +
764A ALA* 3.8 2.9 - - - +
765A LYS* 2.9 37.3 + - - +
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Residues in contact with LEU 762 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741A LEU* 4.1 18.2 - - + +
742A ILE* 4.8 13.2 - - + -
745A PHE* 3.5 48.9 - - + -
750A LEU* 3.7 23.1 - - + +
759A GLU* 3.3 22.8 - - + +
761A THR* 1.3 80.0 - - - +
763A GLU* 1.3 66.1 + - + +
765A LYS* 3.4 11.1 - - - +
766A ILE* 2.9 38.7 + - + +
840A LYS* 5.9 5.8 - - + -
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Residues in contact with GLU 763 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
759A GLU* 3.1 20.6 + - + +
760A GLN* 3.6 19.5 - - + +
761A THR 3.2 0.4 - - - -
762A LEU* 1.3 81.9 - - + +
764A ALA* 1.3 64.5 + - - +
766A ILE* 3.3 10.2 - - - +
767A GLY* 2.9 21.7 + - - -
821A ASN* 5.4 4.2 + - - +
822A ARG* 3.1 44.0 + - - +
840A LYS* 6.0 0.9 - - - +
845A LYS* 4.5 14.3 + - - +
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Residues in contact with ALA 764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760A GLN* 2.9 17.8 + - + +
761A THR* 4.0 2.7 - - - +
763A GLU* 1.3 81.5 + - - +
765A LYS* 1.3 64.7 + - - +
767A GLY* 3.0 4.3 + - - +
768A GLY* 2.9 18.5 + - - -
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Residues in contact with LYS 765 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741A LEU* 4.4 21.9 - - + +
750A LEU* 5.0 5.3 - - - +
751A GLU* 2.7 38.4 + - - +
753A GLN* 3.3 37.6 - - - +
761A THR* 2.9 28.1 + - - +
762A LEU* 3.2 13.9 + - + +
764A ALA* 1.3 73.6 - - - +
766A ILE* 1.3 55.0 + - - +
768A GLY* 2.7 24.1 + - - -
769A LEU* 2.9 23.6 + - + +
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Residues in contact with ILE 766 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734A ALA 5.4 1.1 - - - +
738A CYS* 3.5 41.1 - - + -
741A LEU* 4.0 11.5 - - + +
762A LEU* 2.9 27.4 + - + +
763A GLU* 3.3 11.4 - - - +
765A LYS* 1.3 72.9 - - - +
767A GLY* 1.3 60.6 + - - +
769A LEU* 2.8 31.7 + - + +
770A LEU* 2.9 44.7 + - + +
822A ARG* 3.4 20.6 - - - +
840A LYS 5.8 0.9 - - - +
842A PRO* 4.5 8.3 - - + -
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Residues in contact with GLY 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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763A GLU 2.9 19.1 + - - -
764A ALA* 3.2 8.7 - - - -
765A LYS 3.0 1.0 - - - -
766A ILE* 1.3 77.9 - - - +
768A GLY* 1.3 56.9 + - - +
770A LEU* 5.1 1.5 - - - +
771A SER* 4.2 15.9 + - - -
815A GLN* 5.4 6.4 - - - +
822A ARG* 4.8 13.2 - - - -
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Residues in contact with GLY 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
764A ALA 2.9 7.3 + - - -
765A LYS 2.7 11.7 + - - -
767A GLY* 1.3 72.4 - - - -
769A LEU* 1.3 61.9 + - - +
770A LEU 3.4 0.2 - - - -
771A SER* 3.9 4.4 - - - -
772A LYS* 2.9 31.5 + - - +
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Residues in contact with LEU 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734A ALA* 4.9 4.5 - - + +
737A LYS* 3.5 45.5 - - + +
741A LEU* 4.4 14.8 - - + -
765A LYS* 2.9 32.3 + - + +
766A ILE* 2.8 24.2 + - + +
768A GLY* 1.3 80.7 - - - +
770A LEU* 1.3 57.9 + - + +
772A LYS* 3.2 14.6 + - + +
773A VAL* 2.9 33.7 + - - +
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Residues in contact with LEU 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 VAL* 5.7 0.4 - - + -
734A ALA* 3.7 29.2 - - + +
735A TYR* 5.3 3.4 - - + -
766A ILE* 2.9 35.9 + - + +
767A GLY 5.1 0.4 - - - +
769A LEU* 1.3 73.2 - - - +
771A SER* 1.3 61.0 + - - +
773A VAL* 3.9 2.0 - - + +
774A ARG* 2.9 29.7 + - - +
814A GLY 6.3 0.2 - - - -
815A GLN* 3.2 47.1 - - + +
822A ARG* 4.6 2.7 - - - +
842A PRO* 4.0 19.5 - - + -
847A PHE* 3.8 31.7 - - + -
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Residues in contact with SER 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
767A GLY 4.2 15.1 + - - -
768A GLY* 3.8 4.0 + - - -
769A LEU 3.4 0.2 - - - -
770A LEU* 1.3 76.8 - - - +
772A LYS* 1.3 59.5 + - - +
774A ARG* 3.5 17.5 + - - +
775A GLU* 2.9 32.4 + - - +
814A GLY 6.5 0.4 - - - -
815A GLN* 5.2 7.3 - - - +
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Residues in contact with LYS 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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737A LYS* 5.0 14.6 - - - +
768A GLY 2.9 23.0 + - - +
769A LEU* 3.2 18.4 - - + +
770A LEU 3.2 0.2 - - - -
771A SER* 1.3 78.7 - - - +
773A VAL* 1.3 62.1 + - + +
775A GLU* 3.6 7.2 + - - +
776A GLU* 2.9 34.2 + - + +
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Residues in contact with VAL 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A LEU 3.5 25.8 - - - +
731A VAL* 3.9 17.7 - - + +
733A ILE* 3.7 20.2 - - + -
734A ALA* 3.7 16.4 - - + -
737A LYS* 5.2 8.1 - - + -
769A LEU* 2.9 22.6 + - + +
770A LEU* 4.2 2.5 - - + +
772A LYS* 1.3 76.4 - - + +
774A ARG* 1.3 65.9 + - - +
776A GLU* 3.1 20.6 - - - +
777A VAL* 2.9 33.0 + - + +
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Residues in contact with ARG 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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731A VAL* 6.3 0.2 - - - -
770A LEU 2.9 20.5 + - - +
771A SER* 3.5 16.2 + - - +
773A VAL* 1.3 75.2 - - - +
775A GLU* 1.3 66.4 + - - +
777A VAL* 2.8 23.3 + - - +
778A GLY 3.3 6.6 + - - -
804A LEU* 3.2 38.0 + - - +
807A SER* 4.7 8.4 + - - +
808A GLN* 3.0 39.3 - - - +
812A VAL* 4.2 26.2 + - + +
813A VAL* 3.9 6.5 - - - +
814A GLY* 3.6 37.6 + - - +
847A PHE* 5.5 2.9 - - + -
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Residues in contact with GLU 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
771A SER* 2.9 21.6 + - - +
772A LYS* 4.0 5.7 - - - +
774A ARG* 1.3 81.8 - - - +
776A GLU* 1.3 67.4 + - - +
778A GLY* 2.9 17.3 + - - +
779A ASP* 3.4 5.2 + - - +
807A SER* 6.0 0.4 - - - -
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Residues in contact with GLU 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A LEU* 4.2 20.9 - - + +
733A ILE* 4.6 6.3 - - - +
772A LYS* 2.9 22.6 + - + +
773A VAL* 3.1 37.3 - - - +
774A ARG 3.1 0.2 - - - -
775A GLU* 1.3 82.3 + - - +
777A VAL* 1.3 54.7 + - + +
779A ASP* 2.9 32.1 + - + +
780A VAL* 3.9 4.3 + - - +
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Residues in contact with VAL 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A LEU* 4.0 9.0 - - + -
727A LYS* 4.7 8.1 - - + -
730A LEU* 3.7 42.2 - - + -
731A VAL* 4.4 10.1 - - + -
773A VAL* 3.1 17.0 - - + +
774A ARG 2.8 13.8 + - - +
776A GLU* 1.3 73.2 - - + +
778A GLY* 1.3 57.1 + - - +
780A VAL* 3.6 2.2 - - - +
781A CYS* 2.9 29.4 + - - +
811A ALA* 3.4 25.4 - - + -
812A VAL* 4.2 17.3 - - + -
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Residues in contact with GLY 778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
774A ARG 3.3 6.0 + - - -
775A GLU* 2.9 13.9 + - - -
777A VAL* 1.3 76.0 - - - +
779A ASP* 1.3 66.2 + - - +
781A CYS* 3.2 15.0 + - - +
782A ILE* 3.3 19.8 + - - +
803A THR* 4.4 7.2 + - - -
807A SER* 3.9 14.9 + - - -
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Residues in contact with ASP 779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
775A GLU* 3.4 7.2 + - - +
776A GLU* 2.9 18.5 + - + +
778A GLY* 1.3 79.3 - - - +
780A VAL* 1.3 68.9 + - + +
781A CYS 3.1 0.2 + - - -
782A ILE* 3.8 3.4 - - - +
783A ASN* 3.3 32.2 + - - +
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Residues in contact with VAL 780 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A LEU* 3.6 25.7 - - + +
726A LYS* 4.3 15.0 - - + -
730A LEU* 3.7 26.9 - - + -
776A GLU 4.4 1.8 - - - +
777A VAL* 3.6 9.0 - - - +
779A ASP* 1.3 83.5 - - + +
781A CYS* 1.3 66.0 + - - +
782A ILE 3.6 0.2 - - - -
783A ASN* 4.2 2.2 - - - -
784A GLU* 3.7 50.4 - - - +
785A LEU 4.6 0.3 + - - -
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Residues in contact with CYS 781 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A LEU* 3.5 21.1 - - - +
777A VAL 2.9 21.7 + - - +
778A GLY* 3.4 12.1 - - - +
779A ASP 3.0 0.4 - - - -
780A VAL* 1.3 79.9 - - - +
782A ILE* 1.3 60.5 + - - +
785A LEU* 3.1 29.6 - - - +
803A THR* 5.3 2.7 - - - +
806A VAL* 5.2 4.9 - - - -
807A SER* 4.0 20.2 - - - -
810A VAL* 4.4 8.1 - - - -
811A ALA* 3.7 25.4 - - + -
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Residues in contact with ILE 782 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632A VAL* 5.8 6.3 - - + -
778A GLY 3.5 14.6 - - - +
779A ASP* 3.8 4.5 - - - +
781A CYS* 1.3 78.4 - - - +
783A ASN* 1.3 73.6 + - + +
785A LEU* 3.4 22.0 + - + +
792A LEU* 4.7 18.7 - - + +
796A THR* 4.0 20.4 - - - +
803A THR* 4.4 25.6 - - + +
806A VAL* 6.5 0.4 - - + -
19H ARG* 5.8 7.1 + - - +
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Residues in contact with ASN 783 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
779A ASP* 3.3 27.2 + - - +
780A VAL* 4.7 0.7 - - - -
782A ILE* 1.3 85.9 - - + +
784A GLU* 1.3 66.9 + - + +
785A LEU 3.2 8.1 + - - +
19H ARG* 5.9 2.8 - - - -
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Residues in contact with GLU 784 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A ASP* 3.1 42.7 - - - +
723A LEU 4.5 0.7 + - - -
726A LYS* 3.6 26.3 + - - +
780A VAL* 3.7 41.1 + - - +
782A ILE 3.5 0.2 - - - -
783A ASN* 1.3 81.1 - - + +
785A LEU* 1.3 61.9 + - - +
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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
------------------------------------------------------------
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