Contacts of the helix formed by residues 846 - 875 (chain B) in PDB entry 2O8C
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 846 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431B LYS* 4.1 20.6 + - - -
463B GLU* 3.2 28.4 + - + +
464B ILE* 3.6 41.4 + - + +
844B MET 3.3 0.2 - - - -
845B TYR* 1.3 87.5 - - + +
847B GLU* 1.3 55.8 + - - +
848B THR* 3.1 7.6 - - - -
849B THR* 2.9 33.7 + - - +
850B TYR* 3.2 25.2 + - + +
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Residues in contact with GLU 847 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
844B MET* 4.0 30.6 + - + +
845B TYR 3.7 2.0 - - - -
846B GLU* 1.3 76.5 - - - +
848B THR* 1.3 56.3 + - - +
850B TYR* 3.6 23.4 - - - +
851B SER* 3.1 37.3 + - - +
854B LYS* 4.6 6.8 + - - -
1026B ASP* 5.8 7.9 - - + +
1030B LYS* 3.3 39.4 + - + +
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Residues in contact with THR 848 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
846B GLU* 3.0 2.2 + - - -
847B GLU* 1.3 77.2 + - - +
849B THR* 1.3 64.9 + - - +
851B SER* 3.7 4.4 + - - -
852B LYS* 3.3 45.6 + - - +
1026B ASP* 5.7 1.4 + - - -
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Residues in contact with THR 849 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464B ILE* 4.2 23.0 - - + +
846B GLU* 2.9 24.4 + - - -
848B THR* 1.3 80.2 - - - +
850B TYR* 1.3 66.6 + - + +
851B SER 3.4 0.3 + - - -
852B LYS* 3.4 8.3 + - - +
853B LYS* 3.2 39.5 + - + +
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Residues in contact with TYR 850 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463B GLU* 3.0 45.9 + - - +
464B ILE* 5.0 5.4 - - + -
526B VAL* 3.6 43.2 - - + +
527B LEU* 3.5 29.2 - - + +
844B MET* 4.0 9.0 - - + -
846B GLU* 3.2 34.5 + - + +
847B GLU* 3.5 29.1 + - - +
849B THR* 1.3 85.6 - - + +
851B SER* 1.3 56.4 + - - +
853B LYS* 3.4 6.1 - - + +
854B LYS* 3.1 36.8 + - - +
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Residues in contact with SER 851 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
847B GLU* 3.1 25.2 + - - +
848B THR* 4.1 6.1 - - - -
849B THR 3.3 0.6 - - - -
850B TYR* 1.3 74.3 - - - +
852B LYS* 1.3 62.4 + - - +
854B LYS* 3.3 9.6 + - - +
855B ILE* 2.9 36.5 + - - +
1030B LYS* 6.0 3.5 - - - +
1033B MET* 3.6 24.1 - - - +
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Residues in contact with LYS 852 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
848B THR* 3.3 34.2 - - - +
849B THR* 3.4 7.6 + - - +
850B TYR 3.4 0.2 - - - -
851B SER* 1.3 74.1 - - - +
853B LYS* 1.3 57.3 - - - +
855B ILE* 3.0 7.0 + - + +
856B ILE* 2.7 48.7 + - + +
922B ARG 5.1 4.0 - - - +
923B LYS 4.7 6.8 + - - +
924B THR* 3.5 35.4 - - - +
925B GLY* 5.6 0.9 - - - -
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Residues in contact with LYS 853 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
526B VAL* 3.5 35.6 + - + +
528B GLU 5.9 0.6 + - - -
849B THR* 3.2 29.1 + - + +
850B TYR* 3.4 10.9 - - - +
852B LYS* 1.3 79.0 - - + +
854B LYS* 1.3 56.4 + - - +
856B ILE* 3.5 9.8 + - + +
857B ASP* 3.1 36.1 + - - +
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Residues in contact with LYS 854 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
526B VAL* 3.9 31.1 - - + +
828B VAL* 4.1 36.7 - - + +
847B GLU* 4.6 9.5 + - - -
850B TYR* 3.1 17.4 + - - +
851B SER* 3.5 9.4 + - - +
852B LYS 3.2 0.2 - - - -
853B LYS* 1.3 78.2 - - - +
855B ILE* 1.3 59.9 + - - +
857B ASP* 3.1 11.3 + - - +
858B PHE* 2.9 27.7 + - - +
1030B LYS* 4.0 27.7 - - - +
1033B MET* 4.3 9.0 - - - -
1037B PHE* 4.1 20.4 - - + -
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Residues in contact with ILE 855 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
851B SER* 2.9 20.7 + - - +
852B LYS* 3.7 4.9 - - + +
854B LYS* 1.3 70.6 - - - +
856B ILE* 1.3 62.2 + - + +
858B PHE* 3.1 8.1 + - + +
859B LEU* 2.8 46.4 + - + +
921B ALA* 3.6 26.9 - - + +
922B ARG* 5.3 0.4 - - - -
924B THR 4.2 3.6 - - - +
925B GLY* 3.4 31.9 - - - -
926B LEU* 3.6 26.2 - - + +
1033B MET* 3.8 28.9 - - + -
1037B PHE* 4.8 0.4 - - + -
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Residues in contact with ILE 856 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852B LYS* 2.7 35.2 + - + +
853B LYS* 3.8 8.5 - - + +
855B ILE* 1.3 72.6 - - + +
857B ASP* 1.3 56.5 + - - +
859B LEU* 3.8 8.2 - - + +
860B SER* 2.8 39.3 + - - -
922B ARG* 5.6 16.6 - - + +
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Residues in contact with ASP 857 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821B LEU* 4.0 22.2 - - + +
824B LYS* 2.8 36.0 + - + -
825B ILE* 4.6 6.7 - - + +
853B LYS* 3.1 21.1 + - - +
854B LYS* 3.4 11.1 - - - +
856B ILE* 1.3 76.9 - - - +
858B PHE* 1.3 60.0 + - - +
860B SER* 3.3 7.3 - - - -
861B ALA* 2.9 30.0 + - - +
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Residues in contact with PHE 858 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
825B ILE* 4.3 19.0 - - + +
854B LYS 2.9 8.3 + - - +
855B ILE* 3.1 9.6 + - + +
857B ASP* 1.3 76.8 - - - +
859B LEU* 1.3 59.4 + - + +
861B ALA* 3.2 4.9 + - - +
862B LEU* 3.0 39.2 + - + +
912B TRP* 3.6 32.1 - + - -
916B PHE* 3.7 31.2 - + - -
926B LEU* 4.6 11.0 - - + -
1036B LEU* 4.9 3.6 - - + -
1037B PHE* 3.3 42.6 - + + -
1040B PHE* 3.6 33.9 - + + -
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Residues in contact with LEU 859 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
855B ILE* 2.8 40.3 + - + +
856B ILE* 4.0 6.7 - - + +
858B PHE* 1.3 70.2 - - + +
860B SER* 1.3 60.3 - - - +
862B LEU* 3.7 7.0 - - + +
863B GLU* 2.8 33.8 + - - +
916B PHE* 4.0 19.5 - - + -
918B HIS* 3.4 37.9 - - + +
921B ALA* 4.1 4.5 - - + -
922B ARG* 4.1 29.6 - - + +
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Residues in contact with SER 860 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
816B PRO* 3.9 17.3 - - - +
821B LEU* 3.4 15.2 - - - +
856B ILE* 2.8 24.8 + - - -
857B ASP* 3.3 12.3 - - - -
859B LEU* 1.3 76.9 - - - +
861B ALA* 1.3 59.7 + - - +
863B GLU* 3.6 5.5 + - - +
864B GLY* 3.1 18.9 + - - -
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Residues in contact with ALA 861 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
818B LEU* 3.7 16.0 - - + +
821B LEU* 4.0 11.0 - - + +
822B LEU* 5.7 0.4 - - + -
825B ILE* 3.6 24.9 - - + -
857B ASP 2.9 13.4 + - - +
858B PHE 3.4 8.1 - - - +
859B LEU 3.2 0.2 - - - -
860B SER* 1.3 73.6 - - - +
862B LEU* 1.3 68.2 + - - +
864B GLY* 3.0 11.3 + - - -
865B PHE* 3.1 27.4 + - + -
1040B PHE* 4.6 3.8 - - + -
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Residues in contact with LEU 862 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
858B PHE* 3.0 43.9 + - + +
859B LEU* 3.3 9.6 + - - +
861B ALA* 1.3 75.8 - - - +
863B GLU* 1.3 63.3 + - - +
865B PHE* 3.5 4.4 + - - -
866B LYS* 3.2 30.6 + - - +
909B LEU* 4.0 20.0 - - + +
912B TRP* 3.9 27.4 - - + -
913B ASP* 6.0 0.7 - - - +
916B PHE* 4.3 2.7 - - + -
918B HIS* 3.7 30.1 - - + -
1040B PHE* 3.6 27.3 - - + -
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Residues in contact with GLU 863 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
859B LEU 2.8 17.5 + - - +
860B SER* 3.9 5.6 - - - +
862B LEU* 1.3 73.8 - - - +
864B GLY* 1.3 65.8 + - - +
866B LYS* 3.2 27.0 + - - +
867B VAL* 3.0 33.6 + - + +
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Residues in contact with GLY 864 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
814B LYS 5.5 0.9 - - - -
815B LEU* 3.5 15.5 - - - +
816B PRO* 4.4 6.5 - - - -
818B LEU* 3.9 18.4 - - - -
860B SER 3.1 12.1 + - - -
861B ALA 3.0 8.8 + - - -
863B GLU* 1.3 75.8 - - - +
865B PHE* 1.3 56.7 + - - +
867B VAL* 2.9 22.5 + - - +
868B MET* 3.0 9.7 + - - +
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Residues in contact with PHE 865 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
818B LEU* 3.9 16.2 - - + -
822B LEU* 3.7 25.8 - - + -
861B ALA* 3.1 29.3 + - + -
862B LEU* 4.0 6.7 - - - +
863B GLU 3.4 0.2 - - - -
864B GLY* 1.3 75.0 - - - +
866B LYS* 1.3 57.3 + - - +
868B MET* 3.3 22.1 - - - +
869B CYS* 3.0 31.4 + - - -
905B LEU* 4.1 9.1 - - + +
909B LEU* 4.0 8.7 - - + -
1040B PHE* 4.0 14.4 - + - -
1047B TRP* 3.3 69.1 - + + -
1050B ALA* 4.4 1.1 - - + -
1051B VAL* 3.8 14.1 - - + -
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Residues in contact with LYS 866 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
862B LEU* 3.2 20.0 + - - +
863B GLU* 3.2 32.1 + - - +
864B GLY 3.1 0.4 - - - -
865B PHE* 1.3 75.4 - - - +
867B VAL* 1.3 63.1 + - - +
869B CYS* 3.1 14.9 + - - +
870B LYS* 3.1 12.5 + - - +
909B LEU* 4.2 24.2 - - + -
910B ASN* 6.0 0.2 - - - -
913B ASP* 3.0 41.3 + - - -
918B HIS* 5.4 4.6 + - - -
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Residues in contact with VAL 867 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811B LEU* 3.4 48.5 - - + +
814B LYS* 4.6 20.4 - - + +
815B LEU* 3.8 13.9 - - + -
863B GLU* 3.0 27.9 + - + +
864B GLY* 2.9 9.2 + - - +
866B LYS* 1.3 74.4 - - - +
868B MET* 1.3 63.0 + - - +
870B LYS* 3.0 10.9 + - + +
871B ILE* 3.0 22.4 + - + +
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Residues in contact with MET 868 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769B PHE* 3.7 26.0 - - + -
815B LEU* 3.9 9.2 - - + -
818B LEU* 3.6 20.9 - - + -
864B GLY 3.0 16.9 + - - +
865B PHE* 3.3 31.9 - - - +
867B VAL* 1.3 77.3 - - - +
869B CYS* 1.3 61.5 + - - +
871B ILE* 3.1 13.8 + - - +
872B ILE* 3.2 19.8 + - - +
902B PHE* 4.5 7.9 - - + -
905B LEU* 5.0 0.7 - - + -
1050B ALA* 3.6 28.3 - - - +
1051B VAL* 3.9 9.0 - - + -
1054B ILE* 3.3 29.7 - - + +
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Residues in contact with CYS 869 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
865B PHE 3.0 19.8 + - - -
866B LYS* 3.1 8.5 + - - +
868B MET* 1.3 76.5 - - - +
870B LYS* 1.3 58.0 + - - +
872B ILE* 3.4 8.0 + - - +
873B GLY* 2.8 27.2 + - - -
902B PHE* 4.9 5.2 - - - -
905B LEU* 3.9 32.1 - - - -
906B THR* 4.6 13.2 - - - +
909B LEU* 3.9 10.3 - - - -
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Residues in contact with LYS 870 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811B LEU* 3.9 33.2 - - + +
866B LYS 3.1 10.2 + - - +
867B VAL* 3.0 13.8 + - - +
869B CYS* 1.3 76.3 - - - +
871B ILE* 1.3 58.8 + - - +
873B GLY* 3.8 1.5 - - - -
874B ILE* 2.9 47.4 + - + +
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Residues in contact with ILE 871 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808B VAL* 3.8 25.7 - - + +
811B LEU* 3.8 31.0 - - + -
812B LEU* 3.7 31.2 - - + +
815B LEU* 4.6 2.7 - - + -
867B VAL* 3.0 21.0 + - + +
868B MET* 3.1 9.1 + - - +
870B LYS* 1.3 77.2 - - - +
872B ILE* 1.3 64.4 + - + +
874B ILE* 3.4 4.0 + - - +
875B MET* 3.1 27.0 + - + +
1054B ILE* 3.7 20.9 - - + -
1057B LEU* 3.9 19.1 - - + -
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Residues in contact with ILE 872 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
868B MET 3.2 15.1 + - - +
869B CYS* 3.8 5.8 - - - +
871B ILE* 1.3 80.4 - - + +
873B GLY* 1.3 66.9 + - - +
875B MET* 3.2 15.3 + - - +
876B GLU* 3.2 13.5 + - - +
890B VAL 4.0 13.5 - - - +
891B ILE* 3.8 31.6 - - + +
892B SER* 4.6 5.6 - - - +
893B LEU* 4.8 13.9 - - + -
902B PHE* 3.6 48.9 - - + -
1054B ILE* 5.0 6.1 - - + -
1057B LEU* 5.6 0.4 - - + -
----------------------------------------------------------
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Residues in contact with GLY 873 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
869B CYS 2.8 17.5 + - - -
870B LYS* 3.8 2.2 - - - -
871B ILE 3.3 0.2 - - - -
872B ILE* 1.3 77.7 - - - +
874B ILE* 1.3 60.9 + - - +
876B GLU* 3.6 22.6 - - - +
----------------------------------------------------------
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Residues in contact with ILE 874 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804B LYS* 3.6 45.8 + - + +
807B GLU* 3.4 34.1 - - + +
808B VAL* 4.0 17.7 - - + -
811B LEU* 3.9 22.4 - - + -
870B LYS* 2.9 33.9 + - + +
871B ILE 3.7 4.7 - - - +
872B ILE 3.2 0.2 - - - -
873B GLY* 1.3 78.1 - - - +
875B MET* 1.3 58.1 + - - +
876B GLU 3.1 5.5 + - - -
877B GLU* 3.6 8.8 + - - +
----------------------------------------------------------
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Residues in contact with MET 875 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798B LEU* 4.6 13.9 - - + -
801B VAL* 5.5 2.2 - - + -
804B LYS* 5.1 7.6 - - + -
805B ILE* 6.1 3.1 - - + +
808B VAL* 3.9 22.7 - - + -
871B ILE* 3.1 18.7 + - - +
872B ILE* 3.2 5.8 + - - +
874B ILE* 1.3 72.9 - - + +
876B GLU* 1.3 58.1 + - - +
877B GLU 3.2 2.7 - - - -
878B VAL* 3.4 17.0 + - + +
879B ALA* 3.0 30.8 + - - +
882B PHE* 3.7 29.2 - - + -
891B ILE* 3.8 38.8 - - + +
1057B LEU* 4.1 17.0 - - - -
1061B LEU* 6.4 0.4 - - + -
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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).
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