Contacts of the helix formed by residues 754 - 777 (chain A) in PDB entry 2P8Q
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 MET 754 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707A ARG* 4.0 23.6 - - - +
747A VAL* 3.6 45.2 - - + +
748A ASP 5.8 0.7 - - - +
751A ASP* 3.3 29.4 - - + +
752A TYR 2.9 0.4 - - - -
753A ASP* 1.3 87.9 - - - +
755A VAL* 1.3 59.6 + - - +
756A ASP 3.0 2.5 - - - -
757A TYR* 3.6 8.5 - - + +
758A LEU* 2.8 33.3 + - - +
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Residues in contact with VAL 755 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
747A VAL 6.0 1.3 - - - -
749A LYS* 4.8 12.8 - - + +
751A ASP 3.8 14.3 + - - +
752A TYR* 3.1 41.1 + - + +
754A MET* 1.3 79.0 - - - +
756A ASP* 1.3 76.7 + - - +
757A TYR 3.6 0.2 - - - -
758A LEU* 3.8 6.3 - - - +
759A ASN* 3.2 30.4 + - - +
809A ASP* 3.7 33.9 - - + +
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Residues in contact with ASP 756 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752A TYR 3.6 7.4 + - - +
753A ASP 4.9 1.6 - - - -
754A MET 3.0 0.2 - - - -
755A VAL* 1.3 96.0 - - + +
757A TYR* 1.3 59.1 + - - +
758A LEU 4.1 0.4 - - - +
759A ASN* 3.9 22.7 - - - +
760A GLU* 3.7 19.2 + - - +
811A THR* 4.4 8.7 - - - -
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Residues in contact with TYR 757 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707A ARG* 2.5 84.1 + - + +
708A SER* 4.4 1.8 - - - -
710A LYS* 4.4 7.8 - - - +
711A PRO* 4.1 17.0 - - + +
747A VAL* 5.6 6.3 - - + -
753A ASP 3.9 12.7 + - - +
754A MET* 3.2 12.9 + - + +
756A ASP* 1.3 77.4 - - - +
758A LEU* 1.3 64.1 + - + +
759A ASN 3.2 1.8 - - - -
760A GLU* 3.5 17.0 - - + +
761A LEU* 2.9 54.8 + - + +
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Residues in contact with LEU 758 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745A ALA* 3.4 32.8 - - + +
746A GLN* 4.1 1.6 - - - -
747A VAL* 3.6 44.4 - - + +
754A MET 2.8 17.7 + - - +
755A VAL* 3.8 9.2 - - + +
757A TYR* 1.3 82.8 - - + +
759A ASN* 1.3 58.8 + - - +
761A LEU* 3.8 7.1 - - + +
762A ARG* 2.9 69.2 + - + +
807A ASP* 5.1 1.3 - - - +
809A ASP* 4.9 7.4 - - - +
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Residues in contact with ASN 759 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
755A VAL* 3.2 20.7 + - - +
756A ASP* 3.9 15.3 - - - +
757A TYR 3.2 0.2 - - - -
758A LEU* 1.3 78.1 - - - +
760A GLU* 1.3 67.9 + - - +
762A ARG* 4.2 12.9 - - - +
763A GLU* 2.9 28.0 + - - +
809A ASP* 3.6 28.7 + - - +
810A HIS* 4.0 0.7 - - - -
811A THR* 3.2 45.8 + - + +
814A VAL* 3.5 9.5 - - - +
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Residues in contact with GLU 760 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707A ARG* 5.8 0.5 + - - -
708A SER* 4.1 19.4 + - - +
711A PRO* 4.0 20.1 - - + +
712A GLN* 4.8 9.9 - - - +
756A ASP* 3.7 20.4 + - - +
757A TYR* 3.3 19.5 + - + +
759A ASN* 1.3 81.4 - - - +
761A LEU* 1.3 55.8 + - - +
763A GLU* 3.8 9.0 - - - +
764A SER* 2.9 27.1 + - - +
52B LYS* 5.7 7.3 + - - +
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Residues in contact with LEU 761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710A LYS* 4.3 11.4 - - + -
711A PRO* 3.8 26.9 - - + -
714A LEU* 3.8 24.2 - - + -
742A ALA* 3.7 27.4 - - + +
745A ALA* 4.3 14.8 - - + -
757A TYR* 2.9 40.9 + - + +
758A LEU* 4.0 9.9 - - + +
760A GLU* 1.3 76.5 - - - +
762A ARG* 1.3 64.6 + - + +
763A GLU 3.4 0.2 - - - -
764A SER* 3.4 2.4 - - - -
765A CYS* 3.1 21.9 + - - -
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Residues in contact with ARG 762 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A ALA 5.7 2.5 - - - +
743A SER 5.7 0.4 + - - +
745A ALA 4.3 10.0 + - - +
746A GLN* 4.9 3.6 - - - +
758A LEU* 2.9 59.3 + - + +
759A ASN* 3.2 14.5 + - - +
761A LEU* 1.3 75.4 - - + +
763A GLU* 1.3 68.4 + - - +
765A CYS* 3.0 15.0 + - - +
766A LEU* 3.0 19.2 + - + +
800A PHE* 3.9 22.5 - - + -
803A HIS* 4.4 12.9 - - - -
804A ILE* 2.9 47.5 - - + +
807A ASP* 2.9 34.7 + - - +
809A ASP* 4.2 9.5 + - - -
814A VAL* 4.6 8.3 - - + -
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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 ASN 2.9 17.2 + - - +
760A GLU* 3.8 7.0 - - - +
762A ARG* 1.3 75.8 - - - +
764A SER* 1.3 64.9 + - - +
766A LEU* 3.0 12.3 + - - +
767A GLU* 2.9 32.3 + - - +
811A THR* 4.5 4.7 + - - +
813A GLY* 3.7 28.9 - - - +
814A VAL* 3.8 13.7 + - + +
817A CYS* 3.5 24.0 - - - -
52B LYS* 3.1 31.9 + - - +
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Residues in contact with SER 764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
711A PRO* 2.9 45.6 + - - +
712A GLN* 5.0 3.1 + - - -
714A LEU* 4.3 5.6 - - - -
715A SER* 3.7 18.5 + - - -
760A GLU* 2.9 17.2 + - - +
761A LEU 3.4 10.5 - - - -
763A GLU* 1.3 80.9 - - - +
765A CYS* 1.3 62.1 + - - +
767A GLU* 3.3 5.8 + - - +
768A ALA* 3.0 21.1 + - - +
52B LYS* 5.7 2.6 + - - -
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Residues in contact with CYS 765 (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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714A LEU* 3.9 9.2 - - - -
739A LEU* 4.2 10.5 - - + -
742A ALA* 3.9 39.7 - - - -
743A SER* 4.3 10.3 - - - +
761A LEU* 3.1 24.0 + - - -
762A ARG* 3.0 11.1 + - - +
764A SER* 1.3 76.9 - - - +
766A LEU* 1.3 62.2 + - - +
768A ALA* 3.0 18.6 + - - +
769A TYR* 3.0 22.3 + - + -
800A PHE* 3.9 15.0 - - + -
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Residues in contact with LEU 766 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
762A ARG* 3.0 14.8 + - + +
763A GLU* 3.0 10.7 + - - +
765A CYS* 1.3 76.1 - - - +
767A GLU* 1.3 61.4 + - - +
769A TYR* 3.4 5.8 + - + +
770A THR* 3.0 27.7 + - - -
800A PHE* 3.6 21.1 - - + -
801A ILE* 3.4 28.7 - - + -
804A ILE* 5.7 2.9 - - + -
814A VAL* 3.8 17.9 - - + +
817A CYS* 3.9 19.3 - - + +
818A ALA* 3.6 29.2 - - + +
821A LEU* 3.6 17.1 - - + +
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Residues in contact with GLU 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
715A SER* 2.8 32.2 + - - +
718A GLY* 4.2 4.4 - - - -
763A GLU* 2.9 23.5 + - - +
764A SER* 3.7 9.8 + - - +
765A CYS 3.3 0.2 - - - -
766A LEU* 1.3 76.2 - - - +
768A ALA* 1.3 57.3 + - - +
770A THR* 3.5 8.7 + - - +
771A GLY* 3.0 25.1 + - - -
817A CYS* 3.9 22.8 - - - -
52B LYS* 4.3 18.3 + - - +
55B ARG* 3.5 33.1 + - - +
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Residues in contact with ALA 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
714A LEU* 3.6 21.3 + - - +
717A PHE* 5.1 3.8 - - + -
718A GLY* 3.9 10.0 - - - +
739A LEU* 3.4 28.3 - - + -
764A SER 3.0 12.0 + - - +
765A CYS 3.0 10.1 + - - +
767A GLU* 1.3 74.1 - - - +
769A TYR* 1.3 66.0 + - - +
771A GLY* 3.2 3.5 + - - -
772A ILE* 3.1 28.3 + - + +
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Residues in contact with TYR 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736A LEU* 3.8 21.9 + - + -
739A LEU* 3.4 39.2 - - + +
740A GLN* 3.7 4.5 + - - -
743A SER* 3.8 13.4 + - - -
765A CYS* 3.0 27.3 + - + -
766A LEU* 3.9 5.8 - - - +
768A ALA* 1.3 76.0 - - - +
770A THR* 1.3 57.3 + - - +
772A ILE* 3.1 6.8 + - + +
773A VAL* 2.8 37.8 + - + +
790A VAL* 5.7 1.8 - - + -
793A ARG* 5.7 2.0 - - + -
796A PHE* 3.5 26.9 - + - -
797A ILE* 3.9 43.7 - - + -
800A PHE* 4.5 9.2 - + - -
821A LEU* 4.2 19.3 - - + -
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Residues in contact with THR 770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
766A LEU 3.0 19.0 + - - -
767A GLU* 3.7 8.3 - - - +
769A TYR* 1.3 76.7 - - - +
771A GLY* 1.3 59.8 + - - +
773A VAL* 3.9 1.7 - - - -
774A GLN* 3.0 33.0 + - + +
817A CYS 4.8 1.9 + - - -
820A GLY 4.5 0.7 - - - -
821A LEU* 3.8 19.0 + - - +
824A ASP* 2.9 28.6 + - - +
59B VAL* 3.9 31.9 - - + -
63B ARG* 4.3 6.5 + - - +
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Residues in contact with GLY 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A GLY* 3.5 21.1 - - - -
721A ALA* 3.4 9.0 - - - +
722A LEU* 3.7 21.5 - - - +
767A GLU 3.0 15.3 + - - -
768A ALA 3.2 3.3 + - - -
770A THR* 1.3 77.8 - - - +
772A ILE* 1.3 55.9 + - - +
775A GLY* 2.9 25.3 + - - -
59B VAL* 5.7 0.2 - - - -
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Residues in contact with ILE 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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717A PHE* 5.3 2.5 - - + +
718A GLY* 5.4 0.2 - - - -
721A ALA* 4.0 9.0 - - + -
728A PHE* 3.8 21.8 - - + -
732A LEU* 4.0 21.5 - - + -
735A VAL* 3.9 19.3 - - + -
736A LEU* 4.3 12.1 - - + -
739A LEU* 3.8 25.1 - - + -
768A ALA* 3.1 17.6 + - + +
769A TYR* 3.1 8.9 + - + +
771A GLY* 1.3 76.1 - - - +
773A VAL* 1.3 68.3 + - + +
776A LEU* 2.9 38.6 + - + +
790A VAL* 4.1 12.3 - - + -
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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
----------------------------------------------------------
769A TYR* 2.8 29.9 + - + +
770A THR 4.1 2.2 - - - +
772A ILE* 1.3 73.2 - - + +
774A GLN* 1.3 64.1 + - - +
776A LEU* 5.6 0.4 - - - -
777A LYS* 3.3 19.7 + - + +
787A VAL* 3.4 14.8 - - + +
790A VAL* 4.8 19.3 - - + -
797A ILE* 5.5 2.0 - - + -
821A LEU* 4.8 4.3 - - + -
824A ASP* 4.1 22.2 - - + +
825A LEU* 4.2 20.0 - - + -
828A ALA* 3.6 29.8 - - + -
829A PHE* 4.8 4.5 - - + -
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Residues in contact with GLN 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A LEU* 3.9 18.3 - - + +
770A THR* 3.0 24.7 + - + +
773A VAL* 1.3 78.9 - - - +
775A GLY* 1.3 57.8 + - - +
776A LEU 3.4 0.2 - - - -
777A LYS* 2.4 51.2 + - - +
778A GLY 5.3 1.7 + - - +
824A ASP* 2.9 40.5 + - - +
827A THR* 5.2 3.2 - - - +
864A TRP* 5.3 0.4 - - - -
59B VAL* 4.9 8.3 - - + -
62B ALA* 2.6 38.6 + - + +
63B ARG* 4.3 9.3 - - + +
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Residues in contact with GLY 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721A ALA* 3.6 17.7 - - - -
722A LEU* 4.1 7.6 - - - +
725A GLY* 3.1 25.5 - - - -
726A GLY 4.2 0.7 + - - -
771A GLY 2.9 21.8 + - - -
772A ILE* 3.2 1.9 + - - -
774A GLN* 1.3 80.8 - - - +
776A LEU* 1.3 60.7 + - - +
777A LYS 3.7 3.1 - - - +
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Residues in contact with LEU 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721A ALA* 6.4 0.7 - - + -
725A GLY 4.0 22.2 - - - +
726A GLY* 4.5 6.4 + - - +
728A PHE* 4.6 12.3 - - + -
729A LYS* 4.6 11.2 - - + +
732A LEU* 3.9 26.9 - - + -
772A ILE* 2.9 24.3 + - + +
773A VAL* 5.6 0.2 - - - -
775A GLY* 1.3 77.5 - - - +
777A LYS* 1.3 58.3 + - - +
781A GLU* 4.4 1.2 - - - +
784A HIS 3.5 15.8 - - - +
786A ASP* 3.9 31.8 - - + +
787A VAL* 3.5 23.1 - - + +
790A VAL* 3.9 19.3 - - + -
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Residues in contact with LYS 777 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
773A VAL 3.3 11.9 + - - +
774A GLN* 2.4 49.0 + - - +
775A GLY 3.7 4.7 - - - +
776A LEU* 1.3 79.5 - - - +
778A GLY* 1.3 92.1 + - - +
781A GLU* 4.0 4.9 - - - +
784A HIS* 4.3 22.2 - - - +
787A VAL* 3.4 24.0 - - + -
827A THR* 3.2 43.6 - - - +
828A ALA* 4.7 12.3 - - + -
62B ALA 4.8 4.2 + - - -
63B ARG 4.8 4.6 + - - -
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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