Contacts of the helix formed by residues 841 - 865 (chain G) in PDB entry 1WQ1
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 VAL 841 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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829G GLU 3.6 19.1 - - - +
830G LEU* 3.7 26.2 - - + +
835G LEU* 4.2 19.5 - - + -
839G GLU 3.6 4.6 + - - +
840G ASP* 1.3 74.1 + - - +
842G ASN* 1.3 70.6 + - - +
844G ASN* 3.5 8.0 - - - +
845G LEU* 3.1 27.0 + - - +
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Residues in contact with ASN 842 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
840G ASP* 3.2 12.9 + - - +
841G VAL* 1.3 85.9 - - - +
843G THR* 1.3 63.8 + - - +
845G LEU* 3.6 17.5 + - - +
846G THR* 2.8 28.9 + - - -
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Residues in contact with THR 843 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
826G GLN* 3.7 27.6 - - - +
840G ASP* 3.2 29.2 + - - +
842G ASN* 1.3 78.2 - - - +
844G ASN* 1.3 64.1 + - - +
846G THR* 3.2 10.2 - - - -
847G HIS* 3.1 21.3 + - + +
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Residues in contact with ASN 844 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
826G GLN* 2.9 20.6 + - - -
827G SER 3.1 18.3 + - - +
828G CYS* 4.0 7.7 - - - -
829G GLU 2.8 33.4 + - - +
830G LEU* 4.1 3.4 - - + -
839G GLU* 3.6 27.3 + - - +
840G ASP* 2.8 18.2 + - - +
841G VAL* 3.5 8.2 - - - +
843G THR* 1.3 75.5 - - - +
845G LEU* 1.3 64.3 + - - +
847G HIS* 3.0 6.0 + - - +
848G LEU* 3.0 22.7 + - - +
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Residues in contact with LEU 845 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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830G LEU* 3.8 20.1 - - + +
841G VAL 3.1 14.7 + - - +
842G ASN* 3.8 18.8 - - - +
843G THR 3.4 0.2 - - - -
844G ASN* 1.3 78.0 - - - +
846G THR* 1.3 68.1 + - - +
848G LEU* 3.2 4.7 + - + +
849G LEU* 3.0 39.2 + - + +
955G GLY* 3.2 39.7 - - - +
956G VAL* 4.0 14.8 - - + -
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Residues in contact with THR 846 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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842G ASN 2.8 17.9 + - - -
843G THR* 3.2 12.0 + - - -
844G ASN 3.2 0.2 - - - -
845G LEU* 1.3 80.4 - - - +
847G HIS* 1.3 65.1 + - - +
849G LEU* 3.0 18.3 + - - +
850G ASN* 3.0 31.2 + - - +
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Residues in contact with HIS 847 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
820G LYS* 6.0 7.2 - - - -
824G SER* 3.5 25.4 + - - -
826G GLN* 3.3 44.5 + - + +
828G CYS* 3.6 20.4 - - - -
843G THR* 3.1 7.6 + - + +
844G ASN 3.0 7.7 + - - +
846G THR* 1.3 80.0 - - - +
848G LEU* 1.3 62.1 + - - +
850G ASN* 3.4 11.4 + - - +
851G ILE* 3.2 42.3 + - + +
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Residues in contact with LEU 848 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
828G CYS* 3.4 33.6 - - + +
830G LEU* 4.0 26.9 - - + -
844G ASN 3.0 12.3 + - - +
845G LEU* 3.5 9.9 - - + +
847G HIS* 1.3 75.3 - - - +
849G LEU* 1.3 59.7 + - - +
851G ILE* 3.0 9.2 + - + +
852G LEU* 2.8 45.0 + - + +
929G THR* 4.0 2.2 - - + -
932G LEU* 4.3 24.7 - - + +
933G VAL* 3.8 28.9 - - + +
936G SER* 4.8 0.9 - - - +
953G MET* 6.0 0.2 - - + -
956G VAL* 4.5 8.5 - - + -
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Residues in contact with LEU 849 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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845G LEU* 3.0 40.8 + - + +
846G THR* 3.3 10.1 - - - +
848G LEU* 1.3 75.1 - - + +
850G ASN* 1.3 56.9 + - - +
852G LEU* 3.0 10.6 + - + +
853G SER* 2.8 40.7 + - - +
955G GLY 4.3 5.2 - - - +
956G VAL* 4.2 31.4 - - + +
958G PRO* 5.3 7.0 - - + -
959G PHE* 4.2 22.6 - - + +
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Residues in contact with ASN 850 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
846G THR* 3.0 34.6 + - - +
847G HIS* 3.7 11.4 - - - +
849G LEU* 1.3 79.9 - - - +
851G ILE* 1.3 56.9 + - + +
853G SER* 3.5 7.6 + - - -
854G GLU* 2.9 30.6 + - - +
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Residues in contact with ILE 851 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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817G SER* 5.0 5.6 - - - +
820G LYS* 5.8 7.4 - - - -
821G ILE* 3.8 40.4 - - + -
824G SER* 6.1 0.9 - - - -
828G CYS* 4.1 13.0 - - - -
847G HIS* 3.2 45.5 + - + +
848G LEU* 3.0 6.9 + - + +
850G ASN* 1.3 75.6 - - + +
852G LEU* 1.3 54.9 + - - +
854G GLU* 3.2 8.5 + - + +
855G LEU* 2.8 39.2 + - + +
929G THR* 4.4 6.1 - - + -
933G VAL* 4.7 10.5 - - + -
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Residues in contact with LEU 852 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
848G LEU* 2.8 33.3 + - + +
849G LEU* 3.0 16.8 + - + +
851G ILE* 1.3 76.8 - - - +
853G SER* 1.3 62.8 + - - +
855G LEU* 3.1 5.3 + - + +
856G VAL* 2.9 31.9 + - + +
933G VAL* 3.9 26.9 - - + +
936G SER* 3.7 37.2 - - - +
937G VAL* 4.5 8.5 - - + -
956G VAL* 4.0 16.4 - - + -
959G PHE* 4.4 22.0 - - + -
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Residues in contact with SER 853 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
849G LEU* 2.8 25.6 + - - +
850G ASN* 3.6 9.3 + - - -
852G LEU* 1.3 72.0 - - - +
854G GLU* 1.3 63.7 + - - +
856G VAL* 4.1 0.7 - - - +
857G GLU* 3.1 41.7 + - - +
959G PHE* 4.5 16.0 - - - -
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Residues in contact with GLU 854 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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816G ASP 5.4 0.7 - - - +
817G SER* 5.0 10.5 - - - -
820G LYS* 3.8 27.9 - - - +
850G ASN 2.9 18.2 + - - +
851G ILE* 3.5 8.1 - - - +
853G SER* 1.3 75.4 - - - +
855G LEU* 1.3 62.0 + - - +
857G GLU* 3.7 9.3 - - - +
858G LYS* 3.3 48.0 + - + +
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Residues in contact with LEU 855 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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813G ALA 4.0 6.3 - - - +
814G LEU* 4.3 12.8 - - + -
817G SER* 3.5 35.7 - - - +
818G ILE* 6.2 1.6 - - + -
851G ILE* 2.8 23.5 + - + +
852G LEU* 3.1 5.1 + - + +
854G GLU* 1.3 75.8 - - - +
856G VAL* 1.3 55.6 + - + +
858G LYS* 3.0 7.9 + - - +
859G ILE* 2.8 50.3 + - + +
909G ILE* 4.8 6.7 - - + -
933G VAL* 3.6 31.0 - - + -
937G VAL* 4.0 18.6 - - + -
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Residues in contact with VAL 856 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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852G LEU* 2.9 19.6 + - + +
853G SER 4.3 0.9 - - - +
855G LEU* 1.3 83.0 - - + +
857G GLU* 1.3 56.7 + - - +
859G ILE* 3.9 14.6 - - + -
860G PHE* 2.6 76.3 + - + +
901G PHE* 6.6 0.2 - - + -
937G VAL* 4.8 10.1 - - + -
940G LEU* 4.3 6.1 - - + -
959G PHE* 3.5 32.3 - - + -
963G ASN* 5.1 0.9 - - - +
966G ARG* 6.1 0.4 - - - +
967G MET* 5.5 1.3 - - + -
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Residues in contact with GLU 857 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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853G SER* 3.1 34.0 + - - +
854G GLU* 3.7 8.8 - - - +
856G VAL* 1.3 76.9 - - - +
858G LYS* 1.3 56.6 + - - +
860G PHE* 4.6 0.4 - - - -
861G MET* 3.1 38.0 + - + +
966G ARG* 3.4 34.8 + - - +
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Residues in contact with LYS 858 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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812G HIS 4.8 6.5 - - - +
813G ALA* 3.6 21.4 - - - +
816G ASP* 3.6 35.1 + - + +
817G SER* 4.4 10.9 - - - +
854G GLU* 3.3 40.2 + - + +
855G LEU* 3.0 13.0 + - - +
857G GLU* 1.3 76.7 - - - +
859G ILE* 1.3 63.9 + - - +
861G MET* 3.7 4.0 + - - -
862G ALA* 3.6 18.9 + - - +
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Residues in contact with ILE 859 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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809G PHE* 5.1 5.1 - - + -
813G ALA* 4.1 19.7 - - + +
814G LEU* 4.3 2.0 - - + -
855G LEU* 2.8 48.3 + - + +
856G VAL* 3.0 16.1 + - + +
858G LYS* 1.3 73.4 - - - +
860G PHE* 1.3 69.3 + - + +
862G ALA* 3.3 13.5 + - - +
901G PHE* 4.2 23.3 - - + -
905G ILE* 4.1 27.4 - - + -
909G ILE* 5.5 0.2 - - + -
937G VAL* 4.5 7.6 - - + -
970G PHE* 3.3 27.5 - - + -
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Residues in contact with PHE 860 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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856G VAL* 2.6 47.5 + - + +
857G GLU 3.9 3.4 - - - +
859G ILE* 1.3 78.2 - - + +
861G MET* 1.3 69.6 + - + +
862G ALA 3.0 5.0 + - - -
863G SER* 3.3 20.3 + - - -
901G PHE* 5.3 0.2 - + - -
940G LEU* 4.3 6.5 - - + -
963G ASN* 3.9 14.1 - - - -
966G ARG* 3.4 49.6 - - + +
967G MET* 3.7 48.7 - - + -
970G PHE* 3.8 22.0 - + + -
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Residues in contact with MET 861 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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857G GLU* 3.1 19.7 + - + +
858G LYS* 4.0 4.7 - - - +
859G ILE 3.3 0.2 - - - -
860G PHE* 1.3 84.0 - - + +
862G ALA* 1.3 57.5 + - - +
863G SER 3.6 1.1 - - - -
864G GLU* 5.3 1.0 - - - +
865G ILE* 4.8 2.9 - - - +
966G ARG* 3.9 25.8 - - - +
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Residues in contact with ALA 862 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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809G PHE* 3.6 24.0 - - + -
812G HIS* 5.1 3.4 - - + -
813G ALA* 4.5 13.7 - - + +
858G LYS 3.6 14.4 - - - +
859G ILE 3.6 8.1 - - - +
860G PHE 3.0 1.6 + - - -
861G MET* 1.3 80.3 - - - +
863G SER* 1.3 59.0 + - - +
864G GLU 3.0 3.4 - - - +
865G ILE* 2.8 41.9 + - + +
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Residues in contact with SER 863 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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860G PHE 3.3 14.2 + - - -
861G MET 3.6 1.0 - - - -
862G ALA* 1.3 77.4 - - - +
864G GLU* 1.3 66.6 + - - +
865G ILE 3.1 5.2 + - - -
866G LEU* 3.6 7.4 + - - +
871G ARG* 3.9 9.9 + - - -
970G PHE* 3.6 30.3 + - - -
973G GLU* 4.8 7.6 - - - +
974G LEU* 3.5 29.9 + - - +
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Residues in contact with GLU 864 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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861G MET 5.3 0.9 - - - +
862G ALA* 3.0 1.4 - - - -
863G SER* 1.3 82.0 + - - +
865G ILE* 1.3 66.1 + - + +
866G LEU 3.4 6.3 - - - +
871G ARG* 3.3 30.6 + - - +
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Residues in contact with ILE 865 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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808G GLN* 5.0 2.2 - - + -
809G PHE* 4.0 31.4 + - + +
812G HIS* 4.4 33.9 - - + +
861G MET 4.8 2.7 - - - +
862G ALA* 2.8 32.4 + - + +
864G GLU* 1.3 85.0 - - + +
866G LEU* 1.3 64.3 + - - +
867G PRO* 3.3 9.5 - - - +
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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