Contacts of the helix formed by residues 791 - 818 (chain A) in PDB entry 1QU2
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 ASP 791 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679A ARG* 3.2 37.2 + - - +
683A ASN* 2.9 20.1 + - - +
789A GLU 4.2 0.4 + - - -
790A VAL* 1.3 70.9 - - - +
792A GLN* 1.3 59.9 + - - +
793A ALA* 2.9 12.5 + - - +
794A LEU* 2.9 26.3 + - + +
795A LEU* 3.2 23.3 + - - +
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Residues in contact with GLN 792 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
687A GLU* 4.8 1.4 - - - +
790A VAL* 3.2 16.9 + - + +
791A ASP* 1.3 70.1 + - - +
793A ALA* 1.3 60.1 + - - +
795A LEU* 3.3 16.8 + - - +
796A ASP* 2.7 59.6 + - - +
799A ARG* 3.2 28.9 + - - +
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Residues in contact with ALA 793 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
791A ASP* 2.9 8.5 + - - +
792A GLN* 1.3 75.6 - - - +
794A LEU* 1.3 65.8 + - - +
796A ASP* 3.4 8.8 + - - +
797A LYS* 3.0 25.2 + - - +
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Residues in contact with LEU 794 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676A GLU* 3.6 20.6 - - + +
679A ARG* 3.6 26.2 - - - +
680A TYR* 3.5 28.5 - - + +
683A ASN* 3.5 26.7 - - + +
791A ASP* 2.9 27.6 + - - +
793A ALA* 1.3 77.5 - - - +
795A LEU* 1.3 57.9 + - - +
797A LYS* 3.3 6.4 + - + +
798A TRP* 2.9 64.8 + - + +
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Residues in contact with LEU 795 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
680A TYR* 4.2 10.6 - - + -
683A ASN* 4.0 24.0 - - + -
684A ARG* 3.8 30.5 - - + -
687A GLU* 3.8 27.4 - - + +
790A VAL* 3.9 23.1 - - + -
791A ASP 3.2 10.3 + - - +
792A GLN* 3.5 28.0 - - - +
793A ALA 3.2 0.6 - - - -
794A LEU* 1.3 77.0 - - - +
796A ASP* 1.3 54.8 + - - +
798A TRP* 3.2 1.4 + - - +
799A ARG* 2.7 48.7 + - + +
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Residues in contact with ASP 796 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
792A GLN* 2.7 55.0 + - - +
793A ALA* 3.9 8.0 - - - +
795A LEU* 1.3 70.7 - - - +
797A LYS* 1.3 64.9 + - - +
799A ARG* 3.2 19.4 + - - +
800A THR* 3.1 27.5 + - - +
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Residues in contact with LYS 797 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676A GLU* 2.8 31.4 + - - +
793A ALA 3.0 18.4 + - - +
794A LEU* 3.5 7.2 - - + +
796A ASP* 1.3 80.8 - - - +
798A TRP* 1.3 62.1 + - + +
800A THR* 3.3 7.3 + - - -
801A PHE* 3.0 20.6 + - - +
842A PHE* 3.5 15.7 - - + -
845A SER* 2.9 41.9 + - - -
846A PHE* 3.7 26.5 - - + -
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Residues in contact with TRP 798 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
676A GLU* 3.5 31.9 + - + +
677A VAL* 3.8 41.1 - - + -
680A TYR* 3.4 42.8 - + + +
794A LEU* 2.9 42.8 + - + +
797A LYS* 1.3 77.0 - - + +
799A ARG* 1.3 57.9 + - - +
800A THR 3.1 1.6 - - - -
801A PHE* 3.5 38.4 - + - +
802A MET* 2.7 52.1 + - + +
846A PHE* 3.6 30.1 - + - -
847A ASP 6.2 0.2 - - - -
852A LEU* 3.9 11.4 - - + -
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Residues in contact with ARG 799 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
680A TYR* 5.6 5.2 - - + +
684A ARG* 6.0 4.0 - - - +
687A GLU* 2.9 30.9 + - - -
792A GLN* 3.2 32.8 + - - +
795A LEU* 2.7 39.8 + - + +
796A ASP* 3.4 16.3 + - - +
798A TRP* 1.3 72.4 - - - +
800A THR* 1.3 58.7 + - - +
802A MET* 3.3 8.1 + - - +
803A ASN* 3.1 36.1 + - - +
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Residues in contact with THR 800 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
796A ASP 3.1 12.2 + - - -
797A LYS* 3.4 10.3 - - - -
799A ARG* 1.3 75.0 - - - +
801A PHE* 1.3 65.8 + - - +
803A ASN* 3.1 10.7 + - - +
804A LEU* 3.0 21.1 + - - +
837A PHE* 3.5 28.7 - - + -
842A PHE* 3.4 21.8 - - + -
873A HIS* 4.2 8.8 - - + +
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Residues in contact with PHE 801 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719A PHE* 5.2 0.7 - + - -
797A LYS 3.0 8.7 + - - +
798A TRP* 3.1 28.7 + + - +
800A THR* 1.3 76.1 - - - +
802A MET* 1.3 65.5 + - + +
804A LEU* 3.1 6.5 + - + +
805A ARG* 2.7 39.0 + - + -
842A PHE* 3.7 9.1 - + - -
843A LEU* 4.2 10.3 - - + -
846A PHE* 3.4 38.8 - + + -
849A LEU* 3.8 16.6 - - + -
852A LEU* 3.6 35.4 - - + -
853A PHE* 3.4 39.0 - + - -
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Residues in contact with MET 802 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
680A TYR* 3.9 27.4 - - + +
715A GLU* 5.6 1.3 - - - +
719A PHE* 3.4 48.2 - - + -
798A TRP* 2.7 36.3 + - + +
799A ARG* 3.6 8.1 - - - +
800A THR 3.1 0.2 - - - -
801A PHE* 1.3 77.8 - - + +
803A ASN* 1.3 67.1 + - - +
805A ARG* 3.0 36.4 + - - +
806A ASP* 3.0 20.4 + - - +
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Residues in contact with ASN 803 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
799A ARG* 3.1 23.2 + - - +
800A THR* 3.1 7.2 + - - +
802A MET* 1.3 78.0 - - - +
804A LEU* 1.3 61.1 + - - +
806A ASP* 3.5 23.1 + - - +
807A ASP* 3.5 17.3 + - - +
873A HIS* 3.6 26.4 + - + +
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Residues in contact with LEU 804 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800A THR 3.0 12.7 + - - +
801A PHE* 3.3 11.4 - - + +
802A MET 3.0 0.2 - - - -
803A ASN* 1.3 77.7 - - - +
805A ARG* 1.3 63.2 + - - +
807A ASP* 3.2 13.0 + - + +
808A VAL* 3.2 17.2 + - + +
831A ILE* 4.1 13.5 - - + -
837A PHE* 3.9 27.4 - - + -
839A ALA* 4.8 1.3 - - + -
842A PHE* 4.0 5.8 - - + -
843A LEU* 3.9 29.8 - - + -
853A PHE* 3.5 29.4 - - + -
873A HIS* 3.8 29.5 - - + +
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Residues in contact with ARG 805 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A ASN* 3.5 20.6 + - - +
719A PHE* 3.8 34.2 - - - +
722A ASP* 5.8 0.4 + - - -
801A PHE* 2.7 17.4 + - + +
802A MET* 3.0 25.4 + - - +
804A LEU* 1.3 78.0 - - - +
806A ASP* 1.3 69.3 + - - +
808A VAL* 3.2 3.9 + - - +
809A ASN* 2.9 47.6 + - - +
852A LEU 4.3 14.5 + - - -
853A PHE* 3.9 26.3 - - + +
854A ILE* 5.8 6.3 - - - +
40T G 4.3 2.0 + - - -
41T G 3.1 26.7 + - - -
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Residues in contact with ASP 806 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802A MET* 3.0 21.2 + - - +
803A ASN* 3.6 21.1 - - - +
804A LEU 3.2 0.2 - - - -
805A ARG* 1.3 91.9 + - - +
807A ASP* 1.3 63.3 + - - +
809A ASN* 3.4 8.3 + - - +
810A ARG* 3.0 22.9 + - - +
42T U 4.2 14.3 + - - +
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Residues in contact with ASP 807 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
803A ASN 3.5 6.9 + - - +
804A LEU* 3.2 8.5 + - + +
806A ASP* 1.3 75.7 - - - +
808A VAL* 1.3 61.4 + - - +
810A ARG* 3.1 9.9 + - - +
811A ALA* 2.8 27.9 + - - +
871A TYR* 3.7 23.6 - - + -
872A GLU* 2.5 29.4 - - - +
873A HIS* 2.8 42.6 + - + +
876A ILE* 3.9 7.9 - - + -
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Residues in contact with VAL 808 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804A LEU* 3.4 20.9 - - + +
805A ARG* 3.2 7.8 + - - +
807A ASP* 1.3 76.9 - - - +
809A ASN* 1.3 52.1 + - - +
811A ALA* 2.8 7.6 + - - +
812A LEU* 2.6 53.6 + - + +
829A VAL* 4.2 24.5 - - + -
831A ILE* 4.7 4.5 - - + -
853A PHE* 3.8 39.7 - - + -
876A ILE* 3.8 17.7 - - + -
878A ILE* 5.0 0.9 - - + -
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Residues in contact with ASN 809 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
805A ARG* 2.9 48.4 + - - +
806A ASP* 3.7 7.0 - - - +
808A VAL* 1.3 77.9 - - - +
810A ARG* 1.3 52.7 + - - +
812A LEU* 3.6 23.3 - - - +
813A GLU* 2.8 36.9 + - - +
816A ARG* 4.9 0.4 + - - +
824A SER* 5.8 1.4 - - - -
853A PHE* 4.8 7.9 + - - +
41T G 3.6 39.4 + - - +
42T U 3.8 7.0 + - - +
----------------------------------------------------------
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Residues in contact with ARG 810 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
806A ASP 3.0 15.0 + - - +
807A ASP* 3.2 12.6 - - - +
809A ASN* 1.3 72.7 - - - +
811A ALA* 1.3 65.7 + - - +
813A GLU* 3.2 10.8 + - - +
814A THR* 3.0 52.0 + - - +
817A ASN* 4.0 9.5 - - - +
871A TYR* 3.7 21.3 - - + +
42T U 3.6 42.9 + - - -
43T G 3.8 15.9 + - - -
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Residues in contact with ALA 811 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
807A ASP 2.8 9.7 + - - +
808A VAL 2.8 9.3 + - - +
810A ARG* 1.3 76.9 - - - +
812A LEU* 1.3 63.3 + - - +
814A THR* 3.4 5.0 + - - -
815A ALA* 3.2 23.0 + - - +
869A THR* 5.5 0.2 - - - +
871A TYR* 3.4 22.2 - - + +
876A ILE* 3.6 22.0 - - + +
878A ILE* 3.6 22.0 - - + +
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Residues in contact with LEU 812 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808A VAL* 2.6 28.3 + - + +
809A ASN* 3.6 29.6 - - - +
810A ARG 3.2 0.2 - - - -
811A ALA* 1.3 74.5 - - - +
813A GLU* 1.3 56.3 + - - +
815A ALA* 3.5 3.8 + - - +
816A ARG* 2.8 42.7 + - - +
821A ILE* 3.9 8.7 - - + +
824A SER* 4.1 13.5 - - - -
827A ALA* 3.7 27.4 - - + -
829A VAL* 4.2 3.8 - - + -
853A PHE 4.4 2.9 - - - +
855A VAL* 3.8 20.6 - - + -
878A ILE* 3.5 26.5 - - + -
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Residues in contact with GLU 813 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
809A ASN 2.8 12.2 + - - +
810A ARG* 3.5 20.4 - - - +
812A LEU* 1.3 71.1 - - - +
814A THR* 1.3 66.3 + - - +
816A ARG* 2.7 36.9 + - - +
817A ASN* 2.8 46.1 + - - +
30T C 4.6 2.3 + - - +
40T G 4.2 0.2 + - - -
41T G 2.6 51.5 + - - +
42T U 2.9 29.1 + - - +
----------------------------------------------------------
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Residues in contact with THR 814 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810A ARG* 3.0 30.9 + - - +
811A ALA* 3.7 10.2 - - - -
813A GLU* 1.3 76.6 - - - +
815A ALA* 1.3 64.2 + - - +
817A ASN* 3.1 17.8 + - - +
818A GLU* 3.2 32.7 + - + +
869A THR* 6.5 0.9 - - + -
871A TYR* 4.9 4.3 + - - -
----------------------------------------------------------
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Residues in contact with ALA 815 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811A ALA 3.2 14.5 + - - +
812A LEU 3.8 3.6 - - - +
814A THR* 1.3 79.4 - - - +
816A ARG* 1.3 59.1 + - - +
818A GLU* 3.2 16.3 + - - +
820A VAL* 3.1 38.4 + - + +
821A ILE* 3.6 8.5 + - + -
878A ILE* 3.7 30.7 - - + +
----------------------------------------------------------
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Residues in contact with ARG 816 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
809A ASN* 4.9 0.4 + - - +
812A LEU* 2.8 28.9 + - - +
813A GLU* 2.7 43.5 + - - +
815A ALA* 1.3 74.1 - - - +
817A ASN* 1.3 66.3 + - - +
818A GLU 3.0 1.8 - - - -
819A LYS* 3.1 19.8 + - - +
821A ILE* 3.5 24.1 - - + +
822A GLY 3.0 21.4 + - - -
823A LYS* 4.6 0.4 - - - +
824A SER* 4.3 15.2 - - - +
30T C 4.1 14.3 + - - +
31T C 3.3 39.8 + - - +
40T G 4.2 8.2 + - - +
41T G 3.5 20.6 + - - -
----------------------------------------------------------
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Residues in contact with ASN 817 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810A ARG* 4.0 9.1 - - - +
813A GLU* 2.8 41.2 + - - +
814A THR* 3.1 11.6 + - - +
816A ARG* 1.3 77.9 - - - +
818A GLU* 1.3 58.6 + - + +
819A LYS* 3.2 14.6 + - - +
30T C 4.3 17.9 + - - +
42T U 5.6 1.0 + - - -
----------------------------------------------------------
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Residues in contact with GLU 818 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
814A THR* 3.2 28.9 + - - +
815A ALA* 3.5 13.6 - - - +
816A ARG 3.0 0.8 - - - -
817A ASN* 1.3 79.0 - - + +
819A LYS* 1.3 63.8 + - - +
820A VAL* 2.8 30.8 + - + +
----------------------------------------------------------
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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