Contacts of the helix formed by residues 832 - 871 (chain A) in PDB entry 1D9F
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 ASN 832 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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830A SER* 2.8 20.7 + - - +
831A SER* 1.3 79.5 + - - +
833A GLY* 1.3 66.0 + - - +
834A ALA* 3.3 17.5 + - - +
835A ARG* 3.4 44.0 + - + +
836A ARG* 3.1 21.8 + - - +
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Residues in contact with GLY 833 (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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831A SER 3.2 6.0 + - - -
832A ASN* 1.3 74.2 + - - +
834A ALA* 1.3 51.8 + - - +
836A ARG* 3.1 12.3 + - - +
837A ALA* 2.8 35.9 + - - +
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Residues in contact with ALA 834 (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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832A ASN* 3.3 8.5 + - - +
833A GLY* 1.3 73.1 - - - +
835A ARG* 1.3 59.5 + - + +
837A ALA* 3.0 9.3 + - - +
838A ALA* 2.9 27.9 + - - +
841A ARG* 4.4 2.1 + - - -
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Residues in contact with ARG 835 (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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827A ASP* 3.8 27.1 - - - +
830A SER* 3.5 21.7 + - - +
832A ASN* 3.4 37.9 + - - +
833A GLY 3.3 1.0 - - - -
834A ALA* 1.3 77.4 - - + +
836A ARG* 1.3 59.3 + - - +
838A ALA* 3.4 8.2 + - - +
839A ALA* 3.0 26.2 + - - +
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Residues in contact with ARG 836 (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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810A LYS* 4.5 10.7 - - - +
827A ASP 3.2 15.2 + - - +
828A ILE 3.1 28.7 - - - +
829A LYS* 3.7 14.5 + - - +
830A SER* 4.0 2.2 - - - -
831A SER* 3.5 33.1 + - - +
832A ASN 3.1 18.5 + - - +
833A GLY* 3.8 8.2 - - - +
835A ARG* 1.3 77.3 - - - +
837A ALA* 1.3 62.4 + - - +
839A ALA* 3.7 1.4 - - - +
840A GLU* 2.9 47.5 + - - +
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Residues in contact with ALA 837 (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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833A GLY 2.8 12.3 + - - +
834A ALA* 3.1 14.6 - - - +
836A ARG* 1.3 76.7 - - - +
838A ALA* 1.3 66.9 + - - +
840A GLU* 2.9 21.4 + - - +
841A ARG* 3.1 29.3 + - - +
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Residues in contact with ALA 838 (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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834A ALA 2.9 12.9 + - - +
835A ARG* 3.4 10.7 + - - +
837A ALA* 1.3 77.2 - - - +
839A ALA* 1.3 57.1 + - - +
841A ARG* 3.1 27.5 + - - +
842A ALA* 2.9 30.1 + - - +
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Residues in contact with ALA 839 (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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825A LEU* 3.9 14.2 - - + +
827A ASP* 3.6 33.2 - - + +
828A ILE* 3.8 15.6 - - + +
835A ARG 3.0 18.3 + - - +
836A ARG 3.8 4.0 - - - +
837A ALA 3.2 0.4 - - - -
838A ALA* 1.3 75.8 - - - +
840A GLU* 1.3 57.7 - - - +
842A ALA* 3.9 7.0 - - - +
843A ALA* 3.3 22.0 + - - +
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Residues in contact with GLU 840 (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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806A ARG* 4.0 29.3 + - + +
810A LYS* 3.0 31.3 + - - +
828A ILE* 4.3 6.1 - - + -
836A ARG* 2.9 37.8 + - + +
837A ALA* 2.9 10.8 + - - +
839A ALA* 1.3 77.6 - - - +
841A ARG* 1.3 64.2 + - - +
842A ALA 3.3 0.2 - - - -
843A ALA* 3.5 8.5 - - - +
844A ILE* 3.5 27.0 + - - +
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Residues in contact with ARG 841 (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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766A TYR 3.7 13.9 - - - +
767A GLY* 3.4 24.5 - - - +
768A MET* 3.7 32.0 - - - +
769A SER 5.8 0.2 - - - +
834A ALA 4.4 2.0 + - - -
837A ALA* 3.1 20.4 + - - +
838A ALA* 3.4 44.2 + - - +
840A GLU* 1.3 73.8 - - + +
842A ALA* 1.3 67.3 + - - +
844A ILE* 3.1 8.6 + - - +
845A ASN* 2.9 26.3 + - + +
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Residues in contact with ALA 842 (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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823A LEU* 4.4 7.9 - - + -
825A LEU* 3.7 24.5 - - + -
838A ALA 2.9 16.2 + - - +
839A ALA* 3.9 3.4 - - - +
841A ARG* 1.3 77.3 - - - +
843A ALA* 1.3 61.7 + - - +
845A ASN* 4.5 6.1 - - - -
846A ALA* 3.0 31.0 + - - +
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Residues in contact with ALA 843 (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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805A THR* 3.1 20.3 - - + +
806A ARG* 4.7 6.3 - - - -
809A ALA* 4.0 18.6 - - + -
815A VAL* 3.7 6.9 - - + +
825A LEU* 3.8 19.9 - - + +
828A ILE* 4.9 0.7 - - + -
839A ALA 3.3 13.8 + - - +
840A GLU* 3.5 13.5 - - - +
841A ARG 3.1 0.4 - - - -
842A ALA* 1.3 80.0 - - - +
844A ILE* 1.3 57.2 + - + +
847A PRO* 3.1 22.2 - - - +
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Residues in contact with ILE 844 (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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764A LEU 3.8 21.8 - - - +
765A ILE 4.4 1.1 - - - +
767A GLY* 4.6 11.2 - - - +
801A TYR* 2.9 33.3 + - + -
802A MET* 3.5 39.7 - - + +
805A THR* 4.2 4.7 - - + -
806A ARG* 3.9 31.0 - - + +
840A GLU 3.6 15.5 - - - +
841A ARG* 3.1 7.4 + - - +
843A ALA* 1.3 78.3 - - - +
845A ASN* 1.3 60.1 + - - +
847A PRO* 3.6 1.6 - - - +
848A MET* 3.1 16.6 - - + +
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Residues in contact with ASN 845 (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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666A THR* 4.6 3.3 - - - +
765A ILE* 3.0 43.5 + - - +
766A TYR* 3.8 21.0 - - - -
841A ARG 2.9 17.2 + - - +
842A ALA* 4.1 4.2 - - - +
844A ILE* 1.3 75.5 - - - +
846A ALA* 1.3 71.3 + - - +
847A PRO 3.3 2.2 - - - -
848A MET* 2.8 19.0 + - - +
849A GLN* 2.8 39.0 + - - +
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Residues in contact with ALA 846 (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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666A THR* 4.0 20.1 - - + +
815A VAL* 4.0 7.9 - - + -
817A THR* 4.3 3.2 - - - +
823A LEU* 3.3 32.5 - - + -
842A ALA* 3.0 22.4 + - - +
845A ASN* 1.3 74.3 + - - +
847A PRO* 1.3 59.9 - - + +
849A GLN 4.6 0.2 - - - +
850A GLY* 2.6 34.5 + - - +
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Residues in contact with PRO 847 (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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713A ILE* 4.6 1.0 - - - +
717A LEU* 4.5 11.1 - - + +
801A TYR* 3.7 16.8 - - + +
805A THR* 4.8 2.9 - - + -
815A VAL* 3.9 15.5 - - + -
816A GLU 3.5 26.2 - - - +
817A THR* 4.5 3.8 - - + -
818A LEU* 5.1 0.6 - - + +
843A ALA 3.1 26.0 - - - +
844A ILE 3.6 3.1 - - - +
845A ASN 3.4 4.7 - - - -
846A ALA* 1.3 92.6 - - + +
848A MET* 1.3 54.9 + - - +
851A THR* 2.4 34.9 + - - +
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Residues in contact with MET 848 (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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710A GLU* 4.2 23.8 - - + +
713A ILE* 3.7 26.9 - - + +
714A MET* 3.6 37.2 - - + +
717A LEU* 4.2 12.1 - - + -
764A LEU 4.5 1.1 - - - +
765A ILE* 3.7 39.3 - - + +
801A TYR* 4.4 7.6 - - + +
844A ILE* 3.1 33.9 - - + +
845A ASN* 2.8 4.6 + - - +
847A PRO* 1.3 76.3 - - - +
849A GLN* 1.3 61.9 + - - +
851A THR 3.5 0.3 + - - -
852A ALA* 3.1 26.3 + - - +
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Residues in contact with GLN 849 (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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666A THR* 3.9 22.0 - - - +
668A ARG* 3.3 38.0 + - - +
710A GLU* 3.4 21.0 + - - +
766A TYR* 4.7 15.5 + - - -
845A ASN* 2.8 39.4 + - - +
846A ALA 4.1 0.9 - - - +
848A MET* 1.3 75.0 - - - +
850A GLY* 1.3 67.0 + - - +
852A ALA* 3.2 3.6 + - - +
853A ALA* 2.9 23.0 + - - +
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Residues in contact with GLY 850 (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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666A THR* 3.3 26.7 - - - +
817A THR* 3.7 14.8 - - - -
821A ARG* 4.7 0.4 - - - -
846A ALA 2.6 22.9 + - - -
849A GLN* 1.3 73.7 - - - +
851A THR* 1.3 54.4 + - - +
853A ALA* 3.2 4.9 + - - +
854A ASP* 2.8 32.1 + - - +
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Residues in contact with THR 851 (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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713A ILE* 3.7 19.5 - - + -
817A THR* 3.4 2.5 - - - +
818A LEU* 3.3 56.3 + - + +
819A ASP* 5.8 0.7 - - - +
847A PRO 2.4 27.8 + - - -
848A MET 3.8 4.3 - - - -
849A GLN 3.2 0.4 - - - -
850A GLY* 1.3 74.5 - - - +
852A ALA* 1.3 64.3 + - - +
854A ASP* 3.4 9.5 + - + +
855A ILE* 3.1 38.7 + - + +
909A ARG* 4.9 1.6 - - - -
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Residues in contact with ALA 852 (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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668A ARG* 3.4 26.5 - - - +
709A ILE* 4.1 16.8 - - + -
710A GLU* 4.1 10.3 - - + -
713A ILE* 3.6 12.3 - - + +
848A MET 3.1 14.3 + - - +
849A GLN 3.5 5.2 - - - +
851A THR* 1.3 74.9 - - - +
853A ALA* 1.3 64.6 + - - +
855A ILE* 3.1 3.5 + - - +
856A ILE* 2.9 31.4 + - + +
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Residues in contact with ALA 853 (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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667A GLY* 3.6 32.8 - - - +
668A ARG* 3.8 15.6 - - + +
849A GLN 2.9 13.0 + - - +
850A GLY* 3.2 11.9 - - - +
852A ALA* 1.3 76.0 - - - +
854A ASP* 1.3 64.7 + - - +
856A ILE* 3.1 12.1 + - - +
857A LYS* 3.0 29.8 + - - +
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Residues in contact with ASP 854 (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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525A VAL* 5.3 0.2 - - - -
529A ILE* 4.0 18.3 - - + +
817A THR* 2.9 28.6 + - - -
819A ASP* 3.6 25.1 + - - +
821A ARG* 2.7 36.8 + - - +
850A GLY 2.8 22.1 + - - +
851A THR* 3.8 6.8 - - + +
852A ALA 3.3 0.2 - - - -
853A ALA* 1.3 72.3 - - - +
855A ILE* 1.3 58.0 + - + +
857A LYS* 3.5 5.3 + - - +
858A ARG* 3.0 35.8 + - - +
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Residues in contact with ILE 855 (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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706A TYR* 4.0 16.4 - - + +
709A ILE* 3.8 22.0 - - + -
713A ILE* 4.0 16.8 - - + -
851A THR* 3.1 30.9 + - + +
852A ALA 3.1 6.3 + - - +
854A ASP* 1.3 74.4 - - + +
856A ILE* 1.3 60.4 + - - +
858A ARG* 3.3 1.3 + - - +
859A ALA* 2.9 28.2 + - - +
908A THR* 3.5 24.7 - - + +
909A ARG* 4.1 26.9 - - + -
912A VAL* 4.6 6.1 - - + -
914A LEU* 4.1 16.4 - - + -
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Residues in contact with ILE 856 (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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668A ARG* 3.6 16.4 - - - +
669A LEU* 5.9 1.1 - - + -
706A TYR* 4.3 22.0 - - + -
709A ILE* 5.1 2.0 - - + -
852A ALA* 2.9 24.5 + - + +
853A ALA* 3.5 8.1 - - - +
855A ILE* 1.3 77.9 - - + +
857A LYS* 1.3 59.3 + - + +
859A ALA* 3.2 7.8 + - - +
860A MET* 3.0 36.6 + - + +
879A GLN* 3.7 28.0 - - + +
881A HIS 4.0 7.0 - - - +
882A ASP* 3.5 31.2 - - + +
884A LEU* 4.6 6.4 - - + +
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Residues in contact with LYS 857 (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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529A ILE* 3.7 28.7 - - + +
530A GLU* 2.9 29.9 + - - +
533A LEU* 3.8 23.7 - - + +
661A GLN 4.4 7.5 + - - -
667A GLY 2.8 29.5 + - - +
668A ARG* 5.0 0.6 - - - +
669A LEU* 3.7 33.8 - - + +
821A ARG* 4.0 4.0 - - - +
853A ALA* 3.0 18.2 + - - +
854A ASP 3.9 0.4 - - - +
856A ILE* 1.3 74.3 - - + +
858A ARG* 1.3 62.5 + - - +
860A MET* 3.1 12.0 + - - +
861A ILE* 2.9 34.3 + - - +
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Residues in contact with ARG 858 (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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528A ASN 5.3 2.9 - - - +
529A ILE* 4.0 23.1 - - + +
819A ASP* 2.7 41.5 + - - -
854A ASP 3.0 19.9 + - - +
855A ILE* 4.7 0.2 - - - +
857A LYS* 1.3 75.4 - - - +
859A ALA* 1.3 57.1 + - - +
861A ILE* 3.4 9.7 + - - +
862A ALA* 2.9 29.8 + - - +
907A CYS 4.8 4.1 + - - +
908A THR* 3.4 45.8 + - + +
909A ARG* 3.6 20.5 - - - +
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Residues in contact with ALA 859 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706A TYR* 3.3 31.2 - - + +
855A ILE 2.9 9.7 + - - +
856A ILE* 3.4 9.4 - - - +
857A LYS 3.1 0.2 - - - -
858A ARG* 1.3 75.5 - - - +
860A MET* 1.3 55.3 + - - +
862A ALA* 3.2 4.3 + - - +
863A VAL* 2.7 41.5 + - - +
884A LEU* 4.6 6.1 - - + -
904A MET* 4.3 16.8 - - + +
908A THR* 4.0 8.5 + - - +
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Residues in contact with MET 860 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
533A LEU* 4.0 12.6 - - + -
536A VAL* 4.3 9.2 - - + -
537A LEU* 4.1 20.4 - - + -
540A ILE* 3.3 33.9 - - + -
669A LEU* 4.1 10.5 - - + -
856A ILE* 3.0 24.0 + - - +
857A LYS* 3.1 9.8 + - - +
859A ALA* 1.3 74.0 - - - +
861A ILE* 1.3 59.2 + - - +
863A VAL* 4.0 0.2 - - - -
864A ASP* 2.8 34.3 + - - +
876A MET* 4.0 9.4 - - + +
879A GLN* 3.6 30.5 - - + -
884A LEU* 3.6 24.9 - - + -
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Residues in contact with ILE 861 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528A ASN 3.6 18.6 - - - +
529A ILE* 3.3 29.8 - - - +
532A PRO* 3.8 20.6 - - + +
533A LEU* 4.1 20.6 - - + +
536A VAL* 4.6 5.2 - - + -
857A LYS 2.9 23.3 + - - +
858A ARG* 3.7 8.5 - - + +
860A MET* 1.3 76.6 - - - +
862A ALA* 1.3 59.5 + - - +
864A ASP* 3.7 4.6 - - - +
865A ALA* 3.0 31.4 + - + +
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Residues in contact with ALA 862 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
858A ARG 2.9 18.6 + - - +
859A ALA* 3.6 6.3 - - - +
861A ILE* 1.3 78.9 - - - +
863A VAL* 1.3 64.2 + - + +
865A ALA* 3.3 8.0 + - - +
866A TRP* 3.3 20.1 + - - +
903A LEU* 4.4 13.3 - - + +
907A CYS* 4.3 28.5 - - + +
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Residues in contact with VAL 863 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
859A ALA* 2.7 25.7 + - - +
860A MET* 4.1 4.0 - - - +
862A ALA* 1.3 72.8 - - - +
864A ASP* 1.3 57.5 + - - +
866A TRP* 3.3 11.5 + - + +
867A LEU* 3.0 32.3 + - + +
876A MET* 4.7 5.2 - - - -
884A LEU* 4.6 6.1 - - + -
886A PHE* 3.7 28.7 - - + -
900A ILE* 3.9 15.9 - - + +
903A LEU* 4.0 20.2 - - + -
904A MET* 4.0 26.2 - - + -
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Residues in contact with ASP 864 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536A VAL* 3.7 27.9 - - + +
539A ARG* 2.9 42.6 + - - +
860A MET 2.8 20.4 + - - +
861A ILE 3.7 3.8 - - - +
863A VAL* 1.3 75.8 - - - +
865A ALA* 1.3 56.2 + - - +
867A LEU* 3.3 14.3 + - - +
868A GLN* 2.8 46.1 + - - +
876A MET* 4.1 11.1 - - + +
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Residues in contact with ALA 865 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
861A ILE* 3.0 19.8 + - + +
862A ALA* 3.6 7.9 - - - +
863A VAL 3.3 0.4 - - - -
864A ASP* 1.3 79.3 + - - +
866A TRP* 1.3 56.8 + - - +
868A GLN* 3.4 5.9 + - - +
869A ALA* 2.9 30.1 + - - +
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Residues in contact with TRP 866 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
862A ALA 3.3 5.2 + - - +
863A VAL* 3.6 8.3 - - + +
864A ASP 3.3 0.2 - - - -
865A ALA* 1.3 77.1 - - - +
867A LEU* 1.3 82.3 + - + +
869A ALA* 4.5 4.0 - - + -
870A GLU* 2.7 73.2 + - + +
872A PRO* 4.0 26.9 - - + -
874A VAL* 4.5 1.1 - - + -
896A VAL* 4.1 24.2 - - + -
899A GLN* 3.4 37.1 - - + +
900A ILE* 3.4 22.7 - - + -
903A LEU* 3.7 31.6 - - + -
----------------------------------------------------------
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Residues in contact with LEU 867 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
863A VAL* 3.0 22.5 + - + +
864A ASP* 3.4 19.3 - - - +
866A TRP* 1.3 112.7 - - + +
868A GLN* 1.3 64.9 + - - +
871A GLN* 2.9 34.4 + - - +
872A PRO* 3.7 16.8 - - + +
874A VAL* 4.0 25.8 - - + +
875A ARG* 5.2 0.2 - - - -
876A MET* 4.2 32.8 - - + +
----------------------------------------------------------
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Residues in contact with GLN 868 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434A GLU* 4.8 6.6 - - - +
539A ARG* 3.8 39.0 + - - +
864A ASP* 2.8 39.2 + - - +
865A ALA* 3.8 6.5 - - - +
867A LEU* 1.3 80.0 - - - +
869A ALA* 1.3 58.7 + - - +
871A GLN* 3.1 31.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 869 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
865A ALA 2.9 18.6 + - - +
866A TRP* 3.9 4.5 - - - +
868A GLN* 1.3 80.3 - - - +
870A GLU* 1.3 62.6 + - + +
871A GLN* 3.8 2.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU 870 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
866A TRP* 2.7 54.8 + - + +
869A ALA* 1.3 74.4 - - + +
871A GLN* 1.3 69.0 + - - +
872A PRO* 3.4 8.9 - - + +
899A GLN* 5.0 3.6 - - - +
----------------------------------------------------------
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Residues in contact with GLN 871 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
867A LEU 2.9 18.5 + - - +
868A GLN* 3.1 33.7 + - - +
869A ALA 3.5 2.7 + - - +
870A GLU* 1.3 78.5 - - - +
872A PRO* 1.3 69.6 - - - +
873A ARG* 5.4 0.7 - - - +
----------------------------------------------------------
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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