Contacts of the helix formed by residues 866 - 889 (chain A) in PDB entry 2WXJ
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 866 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
864A PRO 3.3 0.8 + - - -
865A GLY* 1.3 71.6 - - - -
867A ALA* 1.3 62.5 + - - +
868A LEU 3.2 1.6 + - - -
869A ASP* 3.8 20.8 + - - +
870A ARG* 4.5 2.1 + - - +
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Residues in contact with ALA 867 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
863A ASN* 3.9 22.8 - - + +
864A PRO* 3.0 18.5 + - + +
866A GLU* 1.3 76.0 - - - +
868A LEU* 1.3 63.1 + - - +
869A ASP 3.4 0.4 - - - -
870A ARG* 3.4 9.6 + - - +
871A ALA* 3.3 19.8 + - - +
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Residues in contact with LEU 868 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
856A LEU* 5.1 3.8 - - + -
859A LEU* 4.3 11.0 - - + +
860A LYS* 3.9 54.5 - - + +
863A ASN* 3.3 20.8 + - + +
864A PRO 5.2 0.2 - - - -
865A GLY 3.5 11.0 + - - +
866A GLU 3.2 0.6 - - - -
867A ALA* 1.3 77.7 - - - +
869A ASP* 1.3 67.1 + - - +
871A ALA* 3.2 3.3 + - + +
872A ILE* 3.0 45.1 + - + +
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Residues in contact with ASP 869 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
866A GLU* 3.8 15.9 + - - +
867A ALA 3.4 0.2 - - - -
868A LEU* 1.3 82.2 - - - +
870A ARG* 1.3 62.4 + - - +
872A ILE* 3.4 10.9 + - - +
873A GLU* 3.1 21.1 + - - +
944A GLN* 4.7 12.3 + - - -
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Residues in contact with ARG 870 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A HIS* 4.3 19.1 + - - -
809A ARG* 3.7 16.4 - - - +
866A GLU 4.5 1.5 + - - +
867A ALA* 3.4 10.7 + - - +
868A LEU 3.3 0.6 - - - -
869A ASP* 1.3 76.7 - - - +
871A ALA* 1.3 61.4 + - - +
873A GLU* 3.2 15.0 + - - +
874A GLU* 2.5 62.6 + - + +
877A LEU* 3.9 16.0 - - - +
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Residues in contact with ALA 871 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
859A LEU* 4.5 9.0 - - + -
863A ASN* 3.6 35.2 - - + +
867A ALA 3.3 4.2 + - - +
868A LEU* 3.2 10.4 + - + +
870A ARG* 1.3 79.0 - - - +
872A ILE* 1.3 57.7 + - - +
874A GLU* 3.2 3.3 + - - +
875A PHE* 2.8 29.7 + - - +
904A SER 3.3 22.7 - - - +
905A GLY* 3.6 6.6 - - - -
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Residues in contact with ILE 872 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
856A LEU* 4.2 20.0 - - + -
859A LEU* 4.6 3.4 - - + -
868A LEU* 3.0 43.1 + - + +
869A ASP* 3.8 12.3 - - - +
871A ALA* 1.3 74.8 - - - +
873A GLU* 1.3 63.5 + - - +
875A PHE* 3.5 6.7 + - - +
876A THR* 2.8 36.5 + - - +
941A VAL* 3.6 26.2 - - + +
942A ILE 4.3 7.4 - - - +
944A GLN* 4.3 28.9 - - + -
952A LYS* 5.8 4.5 - - + -
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Residues in contact with GLU 873 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
869A ASP 3.1 13.4 + - - +
870A ARG* 3.2 22.4 + - - +
872A ILE* 1.3 75.2 - - - +
874A GLU* 1.3 66.0 + - - +
876A THR* 3.2 10.3 + - - +
877A LEU* 2.9 49.3 + - + +
952A LYS* 5.7 5.0 - - - +
955A ARG* 4.3 8.7 + - - -
959A TYR* 2.7 35.5 + - - -
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Residues in contact with GLU 874 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267A HIS* 4.7 1.9 + - - -
809A ARG* 2.8 42.0 + - - +
870A ARG* 2.5 68.7 + - + +
871A ALA 3.2 1.3 + - - +
873A GLU* 1.3 75.8 - - - +
875A PHE* 1.3 56.6 + - - +
877A LEU* 3.5 1.2 + - - +
878A SER* 2.9 33.6 + - - -
904A SER* 3.5 28.0 + - - +
905A GLY 4.2 1.6 - - - -
906A GLN* 3.5 25.6 + - + +
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Residues in contact with PHE 875 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
834A ILE* 5.6 0.2 - - + -
855A LEU* 4.1 16.6 - - + -
859A LEU* 4.5 9.6 - - + -
871A ALA 2.8 15.6 + - - +
872A ILE* 3.7 8.5 - - - +
874A GLU* 1.3 78.1 - - - +
876A THR* 1.3 58.0 + - - +
878A SER* 3.0 3.9 + - - -
879A CYS* 2.9 36.6 + - + +
901A ILE* 4.1 17.0 - - + -
905A GLY 3.2 26.0 + - - +
907A LEU* 3.8 19.7 - - + -
938A PHE* 3.6 52.9 - + + -
941A VAL* 3.6 24.7 - - + -
942A ILE* 4.1 11.4 - - + -
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Residues in contact with THR 876 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872A ILE* 2.8 24.6 + - - +
873A GLU* 3.7 11.9 + - - +
875A PHE* 1.3 76.2 - - - +
877A LEU* 1.3 68.5 + - - +
879A CYS* 3.7 3.9 - - - +
880A ALA* 3.1 23.6 + - - +
942A ILE* 3.8 28.8 + - + +
952A LYS 5.2 1.8 - - - +
955A ARG* 6.1 0.4 - - + -
956A PHE* 3.7 25.3 - - + +
959A TYR* 3.8 25.1 - - + -
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Residues in contact with LEU 877 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
806A LEU* 5.4 3.1 - - + -
807A ASP 4.0 8.7 - - - +
808A LEU* 3.3 33.5 - - + +
809A ARG* 3.9 28.9 - - + -
870A ARG* 3.9 11.7 - - - +
873A GLU* 2.9 42.5 + - + +
876A THR* 1.3 78.6 - - - +
878A SER* 1.3 63.3 + - - +
880A ALA* 3.2 4.0 + - - +
881A GLY 3.2 16.8 + - - -
959A TYR* 3.7 32.1 - - + +
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Residues in contact with SER 878 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808A LEU 3.1 16.3 + - - -
809A ARG 3.8 13.5 - - - -
810A MET* 4.7 1.1 - - - -
874A GLU 2.9 22.7 + - - -
875A PHE* 3.0 10.4 + - - -
877A LEU* 1.3 74.8 - - - +
879A CYS* 1.3 61.6 + - - +
881A GLY* 3.2 2.1 + - - -
882A TYR* 3.0 31.9 + - - -
906A GLN* 4.2 1.3 - - - -
907A LEU* 2.8 42.2 + - - +
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Residues in contact with CYS 879 (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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875A PHE* 2.9 25.1 + - + +
876A THR* 3.7 5.6 - - - +
878A SER* 1.3 78.0 + - - +
880A ALA* 1.3 55.8 + - - +
882A TYR* 3.9 0.9 - - - +
883A CYS* 2.9 43.2 + - - -
907A LEU* 3.8 22.9 - - + -
934A LEU* 5.7 1.6 - - - -
938A PHE* 3.9 34.1 - - - -
942A ILE* 4.3 4.3 - - + -
956A PHE* 4.0 18.4 - - + -
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Residues in contact with ALA 880 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808A LEU* 4.6 3.8 - - + -
876A THR 3.1 13.6 + - - +
877A LEU 3.4 9.4 - - - +
879A CYS* 1.3 72.7 - - - +
881A GLY* 1.3 65.5 + - - +
883A CYS* 3.4 1.5 + - - +
884A VAL* 3.1 31.5 + - - +
956A PHE* 3.5 17.8 - - + -
959A TYR* 3.7 28.9 - - + -
960A CYS* 3.8 12.8 - - - +
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Residues in contact with GLY 881 (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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801A TRP* 3.6 13.0 - - - -
808A LEU* 3.7 21.6 - - - +
810A MET* 3.9 15.3 - - - -
877A LEU 3.2 8.1 + - - -
878A SER 3.2 3.5 + - - -
880A ALA* 1.3 80.2 - - - +
882A TYR* 1.3 56.5 + - - +
884A VAL* 3.5 0.6 + - - -
885A ALA* 2.9 30.3 + - - +
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Residues in contact with TYR 882 (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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791A LEU* 6.2 2.7 - - + -
794A ILE* 4.0 28.7 - - + +
810A MET* 3.5 32.7 - - + +
811A THR* 2.8 40.6 + - - -
813A TYR* 6.5 0.7 - + - -
878A SER* 3.0 27.8 + - - +
879A CYS 4.4 2.2 - - - +
881A GLY* 1.3 72.8 - - - +
883A CYS* 1.3 61.1 + - - +
885A ALA* 4.4 2.5 - - + +
886A THR* 2.8 37.5 + - + +
907A LEU* 3.1 29.4 - - + -
908A PHE* 3.5 8.8 - - + +
909A HIS* 3.3 49.8 - + + +
912A PHE* 5.6 0.4 - + - -
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Residues in contact with CYS 883 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
879A CYS* 2.9 39.8 + - - +
880A ALA* 3.8 6.1 - - - +
881A GLY 3.3 0.4 - - - -
882A TYR* 1.3 76.4 - - - +
884A VAL* 1.3 59.1 + - - +
886A THR* 3.1 16.3 + - - -
887A TYR* 3.3 15.9 + - - +
909A HIS* 6.3 0.7 - - - -
932A PHE* 3.5 24.3 - - + -
933A ILE* 3.5 24.7 + - - +
934A LEU* 4.3 11.7 - - - -
935A THR 6.2 0.2 - - - -
938A PHE* 5.7 3.8 - - - -
956A PHE* 4.5 1.3 - - - -
960A CYS* 4.8 1.3 - - - -
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Residues in contact with VAL 884 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801A TRP* 4.3 2.2 - - + -
880A ALA 3.1 17.1 + - - +
881A GLY 3.9 2.9 - - - +
883A CYS* 1.3 75.4 - - - +
885A ALA* 1.3 60.2 + - - +
887A TYR* 3.2 3.6 + - + +
888A VAL* 2.9 45.4 + - + +
932A PHE* 4.2 9.9 - - + -
960A CYS* 3.5 38.1 - - + +
963A ALA* 4.1 9.6 - - + -
964A TYR* 3.9 30.7 - - + +
967A LEU* 4.2 11.9 - - + -
1015A PHE* 4.6 2.2 - - + -
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Residues in contact with ALA 885 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
794A ILE* 4.0 26.2 - - + -
797A MET* 3.4 32.7 - - - -
801A TRP* 4.6 2.9 - - + -
810A MET* 5.0 0.2 - - + -
881A GLY 2.9 18.9 + - - +
882A TYR* 4.2 5.2 - - - +
884A VAL* 1.3 76.8 - - - +
886A THR* 1.3 63.6 + - - +
888A VAL 4.6 0.2 - - - +
889A LEU* 3.1 32.5 + - - +
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Residues in contact with THR 886 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
794A ILE* 5.7 1.6 - - + -
882A TYR* 2.8 28.2 + - + +
883A CYS* 3.1 12.6 + - - -
885A ALA* 1.3 78.1 - - + +
887A TYR* 1.3 57.0 + - - +
889A LEU 3.7 0.2 + - - -
890A GLY* 3.1 5.0 + - - -
891A ILE* 2.9 61.1 + - + +
894A ARG* 4.3 11.2 - - - +
909A HIS* 3.9 31.9 - - + +
912A PHE* 5.2 4.5 - - + -
930A VAL* 4.9 0.3 - - - +
933A ILE* 5.7 6.9 + - - +
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Residues in contact with TYR 887 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
883A CYS 3.3 15.2 + - - +
884A VAL* 3.2 4.0 + - - +
885A ALA 3.2 0.4 - - - -
886A THR* 1.3 80.0 + - - +
888A VAL* 1.3 75.4 + - + +
890A GLY* 3.2 12.2 + - - -
929A ARG* 4.3 21.6 + - - -
930A VAL* 3.8 20.6 - - - +
931A PRO 4.2 1.6 - - - -
932A PHE* 3.7 47.6 - + + +
964A TYR* 4.4 3.7 + + - -
997A TYR* 4.4 0.7 + - - -
1000A ASP 5.4 0.5 + - - -
1001A SER* 4.1 27.3 + - - -
1014A HIS* 4.4 10.9 + - - -
1015A PHE* 4.0 25.3 - + - -
1018A LYS* 3.4 34.8 - - + +
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Residues in contact with VAL 888 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797A MET* 4.3 18.2 - - + -
884A VAL* 2.9 35.2 + - + +
885A ALA 4.1 2.7 - - - +
887A TYR* 1.3 80.5 - - + +
889A LEU* 1.3 60.0 + - - +
890A GLY 3.5 0.3 + - - -
964A TYR* 4.2 18.4 - - + -
967A LEU* 4.1 10.3 - - + -
974A PHE* 6.2 2.5 - - + -
997A TYR* 4.3 3.6 - - - -
998A LEU* 3.4 20.7 - - + +
1001A SER* 2.8 34.9 + - - +
1002A LEU* 3.7 22.9 - - + -
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Residues in contact with LEU 889 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
790A THR* 4.3 18.6 - - + -
793A MET* 4.4 11.7 - - + -
794A ILE* 4.1 21.1 - - + -
797A MET* 4.0 24.7 - - + -
885A ALA 3.1 19.8 + - - +
888A VAL* 1.3 76.3 - - - +
890A GLY* 1.3 52.6 + - - +
891A ILE* 3.4 15.7 - - + -
915A PHE* 3.4 10.3 - - + +
916A LEU* 2.6 39.9 + - + +
974A PHE* 5.6 2.0 - - + -
978A PHE* 4.0 28.9 - - + -
997A TYR* 4.3 0.7 - - - -
998A LEU* 4.4 13.2 - - + -
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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