Contacts of the helix formed by residues 884 - 914 (chain B) in PDB entry 1JQO
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 884 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
881B LEU* 2.9 26.7 + - + +
882B GLU 3.2 0.6 + - - -
883B GLY* 1.3 76.0 - - - +
885B PRO* 1.3 69.1 - - - +
886B PHE* 3.1 10.4 + - - +
887B LEU* 2.9 55.1 + - - +
888B LYS* 3.4 15.0 + - - +
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Residues in contact with PRO 885 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
882B GLU 4.4 7.6 - - - +
883B GLY* 4.1 1.6 - - - -
884B ASP* 1.3 84.7 - - - +
886B PHE* 1.3 67.3 + - - +
888B LYS* 4.2 7.4 - - + +
889B GLN* 3.0 23.0 + - - +
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Residues in contact with PHE 886 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ILE 6.2 1.3 - - - -
113B GLU* 5.2 11.2 - - + -
116B GLN* 4.2 20.4 - - + -
117B ILE* 3.2 31.9 - - + -
120B ARG* 3.4 39.7 - - - +
884B ASP* 3.1 8.4 + - - +
885B PRO* 1.3 79.1 - - - +
887B LEU* 1.3 72.7 + - + +
889B GLN* 2.9 36.7 + - - +
890B GLY* 3.0 9.7 + - - -
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Residues in contact with LEU 887 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B GLU* 5.9 3.6 - - - +
831B MET* 4.8 13.2 - - + -
881B LEU* 3.5 35.2 - - + -
884B ASP* 2.9 35.0 + - - +
886B PHE* 1.3 88.2 - - + +
888B LYS* 1.3 55.4 + - - +
890B GLY* 2.7 23.9 + - - -
891B LEU* 3.0 15.1 + - + +
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Residues in contact with LYS 888 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
879B ASP* 3.4 26.9 + - - +
880B ILE* 2.6 31.0 + - - +
881B LEU* 3.3 30.5 - - + +
882B GLU* 4.2 5.0 - - - +
884B ASP 3.4 10.0 + - - +
885B PRO* 4.2 5.8 - - + +
886B PHE 3.4 0.6 - - - -
887B LEU* 1.3 74.1 - - - +
889B GLN* 1.3 61.5 + - - +
891B LEU* 3.0 22.0 + - + +
892B VAL* 2.8 26.3 + - + +
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Residues in contact with GLN 889 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ILE* 4.7 25.7 - - + +
885B PRO 3.0 14.6 + - - +
886B PHE* 2.9 42.3 + - - +
888B LYS* 1.3 76.2 - - - +
890B GLY* 1.3 58.4 + - - +
892B VAL* 3.9 10.2 + - - +
893B LEU* 3.7 19.2 + - - +
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Residues in contact with GLY 890 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B GLU* 5.7 4.0 - - - -
886B PHE 3.0 7.2 + - - -
887B LEU* 2.7 17.7 + - - -
889B GLN* 1.3 73.3 - - - +
891B LEU* 1.3 64.0 + - - -
892B VAL 3.3 0.2 - - - -
893B LEU* 3.4 4.9 + - - +
894B ARG* 3.0 39.3 + - - +
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Residues in contact with LEU 891 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
834B ALA* 2.9 31.4 - - + +
835B LYS* 4.6 22.0 - - + -
881B LEU* 4.3 18.6 - - + -
887B LEU* 3.0 15.4 + - + +
888B LYS* 3.6 11.0 - - + +
890B GLY* 1.3 78.3 - - - +
892B VAL* 1.3 58.4 + - + +
894B ARG* 3.1 10.3 + - - +
895B ASN* 2.6 62.1 + - - +
966B MET* 6.1 1.3 - - + -
967B GLN* 5.9 1.6 - - - +
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Residues in contact with VAL 892 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B TYR* 4.2 2.1 + - - -
888B LYS* 2.8 24.9 + - + +
889B GLN* 4.0 10.1 - - - +
890B GLY 3.3 0.2 - - - -
891B LEU* 1.3 77.7 - - + +
893B LEU* 1.3 56.7 + - - +
895B ASN* 5.1 0.9 - - - -
896B PRO* 3.3 20.3 - - - +
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Residues in contact with LEU 893 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35B ILE* 6.1 5.2 - - + -
38B ASP* 4.8 28.9 - - + +
42B VAL* 6.1 3.6 - - + -
65B TYR* 3.6 26.4 + - + +
109B ALA* 5.1 14.1 - - + -
889B GLN 3.7 12.7 + - - +
890B GLY* 3.4 5.0 + - - +
891B LEU 3.2 0.2 - - - -
892B VAL* 1.3 78.6 - - + +
894B ARG* 1.3 65.0 + - + +
896B PRO* 4.0 3.1 - - - +
897B TYR* 4.2 9.6 - - + -
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Residues in contact with ARG 894 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106B LEU* 3.7 17.6 - - + +
109B ALA* 3.8 25.0 + - + +
110B ASN* 3.1 25.8 + - - +
113B GLU* 2.5 34.1 + - - -
890B GLY* 3.0 26.7 + - - +
891B LEU* 4.0 9.2 - - - +
893B LEU* 1.3 82.2 - - + +
895B ASN* 1.3 69.4 + - - +
896B PRO* 3.6 0.4 - - - -
897B TYR* 3.1 22.7 + - - +
898B ILE* 3.5 7.5 + - - +
965B GLY* 3.2 37.7 + - - -
967B GLN* 3.2 18.4 + - - +
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Residues in contact with ASN 895 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B GLU* 3.1 24.4 - - - +
785B ARG* 4.1 12.6 + - - +
834B ALA 5.4 1.2 - - - +
835B LYS* 5.5 4.0 - - - +
891B LEU* 2.6 56.0 + - - +
892B VAL* 5.1 0.9 - - - -
894B ARG* 1.3 67.7 - - - +
896B PRO* 1.3 59.9 - - + +
897B TYR 2.5 18.3 + - - -
898B ILE* 2.7 31.1 + - - +
899B THR* 2.9 13.6 + - - -
966B MET* 5.0 4.0 - - - +
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Residues in contact with PRO 896 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B TYR* 3.0 49.9 - - + +
68B SER* 2.9 22.7 + - - +
69B ALA* 3.9 25.6 - - + +
72B GLU* 3.8 19.5 - - + -
892B VAL 3.3 19.5 - - - +
893B LEU 4.0 2.9 - - - +
894B ARG 3.6 0.4 - - - -
895B ASN* 1.3 91.2 - - + +
897B TYR* 1.3 57.0 + - - +
900B THR* 2.9 13.0 + - - -
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Residues in contact with TYR 897 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B VAL* 4.8 11.8 - - + +
46B LEU* 5.6 0.7 - - - +
61B VAL* 4.9 5.7 + - + +
62B GLN* 5.7 2.8 + - - -
65B TYR* 3.5 44.1 - + + +
102B ILE* 3.6 33.9 - - + +
105B MET* 3.2 47.8 - - + +
106B LEU* 3.2 31.2 - - + -
893B LEU* 4.2 15.7 - - + -
894B ARG* 3.1 2.4 + - - +
895B ASN 2.5 5.1 + - - -
896B PRO* 1.3 74.8 - - - +
898B ILE* 1.3 65.6 + - - +
899B THR 3.2 0.9 - - - -
900B THR* 3.2 8.5 + - - -
901B LEU* 3.2 22.5 + - - +
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Residues in contact with ILE 898 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106B LEU* 4.0 10.1 - - + -
785B ARG* 3.5 16.2 - - - +
894B ARG* 3.5 13.2 + - - +
895B ASN* 2.7 26.9 + - - +
897B TYR* 1.3 73.2 - - - +
899B THR* 1.3 64.6 + - - +
901B LEU* 3.0 10.0 + - - +
902B ASN* 2.9 29.3 + - - +
962B ILE* 4.3 18.8 - - + +
965B GLY* 3.5 35.2 - - - +
966B MET* 3.3 30.7 - - + -
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Residues in contact with THR 899 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B SER* 3.1 21.5 - - - +
71B TYR* 3.9 21.5 - - + -
72B GLU* 2.7 29.9 + - - -
80B LEU* 3.9 13.9 - - + -
785B ARG* 3.0 17.7 + - - +
840B ILE* 4.1 10.3 - - + +
895B ASN 2.9 9.9 + - - -
896B PRO* 3.9 0.9 - - - -
898B ILE* 1.3 75.5 - - - +
900B THR* 1.3 55.1 + - - +
902B ASN* 2.5 28.7 + - - +
903B VAL* 2.9 14.1 + - + -
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Residues in contact with THR 900 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64B CYS* 3.2 29.1 + - + +
65B TYR* 4.5 1.4 - - - -
68B SER* 3.1 17.5 - - - -
83B LEU* 4.4 8.1 - - + -
87B LEU* 4.1 10.9 - - + +
102B ILE* 3.6 26.0 - - + -
896B PRO 2.9 15.3 + - - -
897B TYR* 3.2 10.7 + - - -
899B THR* 1.3 78.3 - - - +
901B LEU* 1.3 56.2 + - - +
903B VAL* 3.4 10.1 + - - +
904B PHE* 2.9 28.6 + - + +
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Residues in contact with LEU 901 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B ALA* 4.4 15.5 - - - +
102B ILE* 3.6 34.1 - - + +
106B LEU* 3.7 21.3 - - + -
897B TYR 3.2 6.4 + - - +
898B ILE* 3.0 9.3 + - - +
899B THR 2.8 2.2 + - - -
900B THR* 1.3 72.9 - - - +
902B ASN* 1.3 60.6 + - - +
904B PHE* 3.5 8.5 + - + +
905B GLN* 3.0 28.1 + - - +
957B LEU 5.3 0.7 - - - +
958B THR* 4.2 26.8 - - + +
961B GLY* 3.5 36.3 - - - -
962B ILE* 3.6 16.0 - - + +
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Residues in contact with ASN 902 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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783B GLN 3.0 24.1 + - - +
785B ARG* 2.7 31.5 + - - -
840B ILE* 3.3 30.7 - - + +
843B LEU* 5.1 2.0 - - + -
844B TYR* 2.9 29.5 + - + +
898B ILE* 2.9 16.5 + - - +
899B THR* 2.5 19.3 + - - +
901B LEU* 1.3 69.9 - - - +
903B VAL* 1.3 55.7 + - + +
905B GLN* 2.9 3.1 + - - +
906B ALA* 2.7 35.0 + - - +
962B ILE* 3.5 8.3 - - - +
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Residues in contact with VAL 903 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80B LEU* 4.0 32.3 - - + +
83B LEU* 3.8 10.3 - - + -
84B GLY* 3.3 36.1 - - - +
87B LEU* 3.8 8.5 - - + -
840B ILE* 6.0 0.2 - - + -
843B LEU* 4.5 19.5 - - + -
899B THR* 2.9 18.8 + - + +
900B THR* 3.5 9.9 - - - +
902B ASN* 1.3 78.9 - - + +
904B PHE* 1.3 61.8 + - - +
905B GLN 3.1 1.0 + - - -
906B ALA 4.6 0.2 - - - +
907B TYR* 3.3 29.8 + - + +
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Residues in contact with PHE 904 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87B LEU* 3.6 58.6 - - + -
88B THR* 4.6 6.1 - - + -
90B LEU* 4.5 1.3 - - + -
95B ALA* 3.4 46.2 - - + -
98B VAL* 4.4 6.3 - - + -
99B ALA* 4.2 18.8 - - + -
102B ILE* 5.9 3.6 - - + -
900B THR* 2.9 19.0 + - + +
901B LEU* 3.9 10.5 - - + +
902B ASN 3.2 0.2 - - - -
903B VAL* 1.3 75.3 - - - +
905B GLN* 1.3 54.3 + - - +
907B TYR* 5.2 1.3 - - + -
908B THR* 2.4 41.7 + - - -
911B ARG* 5.6 2.7 - - - -
954B THR* 3.9 12.3 - - + -
958B THR* 3.9 11.8 - - + +
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Residues in contact with GLN 905 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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747B PRO* 3.6 23.2 - - - +
783B GLN* 3.6 26.8 + - - +
844B TYR* 2.6 32.1 + - - +
901B LEU 3.0 16.4 + - - +
902B ASN 2.9 5.2 + - - +
904B PHE* 1.3 79.3 - - - +
906B ALA* 1.3 65.9 + - - +
907B TYR 3.3 1.3 - - - -
908B THR* 3.8 3.8 - - - -
909B LEU* 3.1 33.8 + - + +
955B LEU* 4.9 3.4 - - + -
958B THR* 3.6 24.2 + - - +
959B MET* 3.8 11.5 - - - +
962B ILE* 3.7 7.2 - - - +
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Residues in contact with ALA 906 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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843B LEU* 4.4 4.9 - - + -
844B TYR* 3.8 28.5 - - + -
847B LEU* 3.4 30.1 - - + +
848B LEU* 3.7 22.2 - - - +
902B ASN 2.7 19.0 + - - +
903B VAL 4.2 2.9 - - - +
905B GLN* 1.3 74.6 - - - +
907B TYR* 1.3 61.7 + - - +
909B LEU 3.6 0.3 + - - -
910B LYS* 3.5 13.5 + - - +
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Residues in contact with TYR 907 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80B LEU 5.2 0.7 - - - -
81B GLY* 3.2 30.6 + - - -
84B GLY* 3.5 38.1 - - - +
85B ALA* 4.0 3.8 - - + -
87B LEU* 6.3 0.2 - - + -
88B THR* 3.4 25.6 - - + -
843B LEU* 5.2 4.5 - - + -
847B LEU* 3.6 34.6 - - + +
903B VAL* 3.3 24.4 + - + +
904B PHE* 5.2 2.5 - - + +
905B GLN 3.3 0.4 - - - -
906B ALA* 1.3 74.4 - - + +
908B THR* 1.3 62.0 + - - +
909B LEU 3.1 0.2 - - - -
910B LYS* 2.9 24.1 + - - +
911B ARG* 2.9 15.4 + - - +
917B PHE* 4.4 19.6 - + + -
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Residues in contact with THR 908 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B THR* 4.7 1.4 - - - +
904B PHE* 2.4 40.2 + - - -
905B GLN* 3.4 7.5 + - - -
906B ALA 3.4 0.2 - - - -
907B TYR* 1.3 78.1 - - - +
909B LEU* 1.3 61.3 + - - +
911B ARG* 3.4 12.7 + - - +
912B ILE* 3.2 18.6 + - + +
951B LEU* 3.4 31.2 - - + +
954B THR* 4.2 6.2 - - + +
955B LEU* 4.2 33.7 - - + +
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Residues in contact with LEU 909 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
746B THR 5.3 0.2 - - - -
747B PRO* 3.9 25.8 - - + -
750B GLU* 4.1 20.4 - - + -
844B TYR* 4.5 7.4 - - + -
848B LEU* 3.4 35.9 - - + -
905B GLN* 3.1 28.4 + - + +
906B ALA 3.8 0.2 - - - +
907B TYR 3.1 0.4 - - - -
908B THR* 1.3 76.5 - - - +
910B LYS* 1.3 58.1 + - - +
912B ILE* 3.2 9.5 + - + +
913B ARG* 2.8 46.8 + - + +
955B LEU* 3.4 27.8 - - + -
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Residues in contact with LYS 910 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
847B LEU* 3.2 34.6 + - + +
848B LEU* 3.5 16.5 - - + +
906B ALA 3.5 4.6 + - - +
907B TYR* 2.9 12.8 + - - +
909B LEU* 1.3 76.8 - - - +
911B ARG* 1.3 54.2 + - - +
912B ILE 2.7 15.8 + - - -
913B ARG* 4.1 5.3 - - + +
914B ASP* 2.7 47.2 + - + +
917B PHE* 3.4 42.6 - - + -
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Residues in contact with ARG 911 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B LEU 4.5 1.8 + - - -
88B THR* 2.6 59.0 + - + +
90B LEU 4.8 6.9 + - - -
92B PRO* 6.2 2.6 - - - +
904B PHE* 5.6 3.2 - - - -
907B TYR 2.9 14.2 + - - +
908B THR* 3.4 7.2 + - - +
910B LYS* 1.3 73.5 - - - +
912B ILE* 1.3 57.3 + - - +
914B ASP 4.4 9.8 - - - +
915B PRO* 5.0 4.2 - - - +
917B PHE* 3.8 22.7 - - + +
919B VAL* 4.4 10.5 - - + +
948B PRO* 4.6 5.9 - - - +
951B LEU* 3.4 43.7 - - + +
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Residues in contact with ILE 912 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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750B GLU* 5.4 0.4 - - - +
908B THR* 3.2 24.0 - - + +
909B LEU* 3.4 12.8 - - + +
910B LYS 2.7 1.6 + - - -
911B ARG* 1.3 80.3 - - - +
913B ARG* 1.3 67.2 + - + +
914B ASP 3.3 1.1 - - - -
915B PRO* 4.4 7.8 - - - +
947B TYR* 3.2 63.3 - - + +
948B PRO* 5.6 2.9 - - + -
951B LEU* 3.5 19.5 - - + -
955B LEU* 4.2 16.2 - - + -
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Residues in contact with ARG 913 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743B ARG 2.9 25.9 + - - -
744B SER* 2.6 33.2 + - - +
746B THR 3.9 15.0 + - - -
747B PRO* 4.8 3.6 - - - +
749B THR* 5.0 7.1 + - - -
750B GLU* 5.8 1.6 + - - +
848B LEU* 3.5 36.8 + - + +
909B LEU* 2.8 39.8 + - + +
910B LYS* 4.1 6.1 - - + +
912B ILE* 1.3 80.7 - - + +
914B ASP* 1.3 57.7 + - + +
915B PRO* 3.6 7.0 - - - +
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Residues in contact with ASP 914 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910B LYS* 2.7 42.8 + - + +
911B ARG* 4.4 2.8 - - - +
912B ILE 4.5 1.8 - - - -
913B ARG* 1.3 73.5 - - - +
915B PRO* 1.3 64.9 - - - +
916B ASN* 2.7 36.0 + - - +
917B PHE* 3.1 51.4 + - - +
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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) + - + + + + + -
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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