Contacts of the helix formed by residues 829 - 852 (chain A) in PDB entry 1WZ2
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 829 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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727A ARG* 4.5 17.8 - - - +
731A HIS* 2.9 24.5 - - + -
827A TRP* 5.1 4.2 + - - +
828A TRP* 1.3 79.9 + - - +
830A GLU* 1.3 65.2 + - - +
831A THR* 2.9 15.6 + - - +
832A ILE* 2.6 49.5 + - + +
833A GLU* 3.0 19.8 + - - +
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Residues in contact with GLU 830 (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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731A HIS* 4.0 9.0 + - - +
828A TRP* 5.4 10.6 - - + +
829A ASN* 1.3 73.8 - - - +
831A THR* 1.3 67.9 + - - +
833A GLU* 3.4 10.3 - - - +
834A ALA* 2.9 28.3 + - - +
917A ASP* 3.4 34.9 - - - +
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Residues in contact with THR 831 (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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829A ASN* 2.9 11.2 + - - -
830A GLU* 1.3 87.1 + - - +
832A ILE* 1.3 55.1 + - - -
833A GLU 3.1 1.3 - - - -
834A ALA* 3.0 9.1 + - + +
835A GLU* 2.7 53.4 + - + +
917A ASP* 4.7 11.9 + - + +
918A VAL 4.5 17.3 - - - +
919A LYS* 4.7 3.8 - - - -
920A ARG 5.7 0.2 - - - +
921A ILE* 5.6 3.4 - - + -
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Residues in contact with ILE 832 (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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724A ASP* 3.9 25.4 - - + +
727A ARG* 3.6 32.8 - - + -
728A TRP* 3.8 13.4 - - + -
829A ASN* 2.6 47.6 + - + +
831A THR* 1.3 72.4 - - + +
833A GLU* 1.3 65.4 + - - +
835A GLU* 3.5 14.4 - - + +
836A GLU* 2.9 24.1 + - - +
921A ILE* 6.0 2.5 - - + -
925A LYS* 3.2 24.9 - - - +
928A ARG* 6.0 0.4 - - - +
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Residues in contact with GLU 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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728A TRP* 4.0 16.8 + - + +
731A HIS* 2.4 42.3 - - + +
732A ARG* 3.2 35.3 + - - -
735A LYS* 3.4 18.7 + - - -
829A ASN 3.0 13.3 + - - +
830A GLU* 3.4 11.2 - - - +
832A ILE* 1.3 79.5 - - - +
834A ALA* 1.3 62.1 + - - +
836A GLU* 3.5 3.3 + - - +
837A GLU* 3.2 30.5 + - - +
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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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830A GLU 2.9 14.9 + - - +
831A THR* 3.0 12.8 + - - +
833A GLU* 1.3 75.5 - - - +
835A GLU* 1.3 66.7 + - + +
837A GLU* 3.0 30.0 - - - +
838A PHE* 3.1 11.0 + - - +
916A PHE* 6.5 1.6 - - + -
917A ASP* 6.1 4.3 - - + -
919A LYS* 4.8 21.2 - - + +
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Residues in contact with GLU 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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831A THR* 2.7 44.5 + - - +
832A ILE* 3.3 13.6 + - - +
834A ALA* 1.3 71.8 - - - +
836A GLU* 1.3 58.7 + - - +
838A PHE* 3.0 30.2 + - + +
839A ILE* 3.1 9.9 + - - +
919A LYS* 4.1 19.9 - - + -
921A ILE* 3.2 33.3 - - - +
922A ASN* 4.3 4.2 + - - -
925A LYS* 3.5 38.9 + - + +
928A ARG* 3.6 13.0 + - - -
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Residues in contact with GLU 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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725A ILE* 3.9 13.7 - - - +
728A TRP* 3.1 35.2 - - + +
766A TRP* 2.6 43.3 - - + -
770A ARG* 3.2 17.7 + - - -
832A ILE 2.9 12.6 + - - +
833A GLU 3.7 2.7 - - - +
834A ALA 3.2 0.4 - - - -
835A GLU* 1.3 77.8 - - - +
837A GLU* 1.3 51.0 + - - +
839A ILE* 2.8 24.9 - - - +
840A ARG* 2.6 28.4 - - + +
925A LYS* 3.0 25.1 + - - -
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Residues in contact with GLU 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 GLU* 3.2 18.7 + - - +
834A ALA* 3.0 34.0 + - - +
836A GLU* 1.3 73.5 - - - +
838A PHE* 1.3 59.4 + - - +
840A ARG* 3.1 16.6 - - + +
841A SER* 2.7 31.2 + - - -
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Residues in contact with PHE 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 3.1 12.9 + - - +
835A GLU* 3.0 16.1 + - - +
837A GLU* 1.3 75.7 - - - +
839A ILE* 1.3 72.9 + - + +
841A SER* 2.3 33.6 + - - -
842A VAL* 2.9 30.7 + - + -
862A TYR* 4.7 4.9 - + - -
864A TYR* 3.8 10.5 - + - -
919A LYS* 5.0 12.6 - - + -
922A ASN* 2.8 50.5 - - + -
925A LYS* 5.4 1.6 - - + -
926A ALA* 4.8 7.9 - - + -
960A LEU* 4.0 21.8 - - + -
962A PRO* 3.4 23.3 - - + -
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Residues in contact with ILE 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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766A TRP* 5.4 0.7 - - + -
770A ARG* 4.7 6.1 - - - +
835A GLU 3.4 2.0 - - - +
836A GLU* 2.8 39.5 - - - +
838A PHE* 1.3 80.2 - - + +
840A ARG* 1.3 59.8 + - + +
842A VAL* 3.2 10.6 + - + +
843A MET* 3.0 31.7 + - + +
862A TYR* 5.5 0.2 - - - +
925A LYS* 3.3 54.3 - - + +
926A ALA* 3.8 26.0 - - + +
930A ALA* 4.3 12.6 - - + -
934A MET* 4.5 12.5 - - + +
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Residues in contact with ARG 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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728A TRP* 6.2 1.7 - - - -
766A TRP* 3.8 52.4 - - + +
769A ARG* 5.9 1.2 - - - +
836A GLU* 2.6 26.6 + - - +
837A GLU* 3.1 17.5 - - - +
839A ILE* 1.3 77.1 - - - +
841A SER* 1.3 56.9 + - - +
843A MET* 3.0 17.9 - - - +
844A GLU* 2.9 42.0 + - + +
945C C 5.1 8.1 + - - -
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Residues in contact with SER 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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837A GLU 2.7 15.3 + - - -
838A PHE* 2.3 36.1 + - - -
840A ARG* 1.3 71.5 - - - +
842A VAL* 1.3 70.5 + - - +
844A GLU* 3.0 18.6 + - - +
845A ASP* 2.8 30.1 + - - +
960A LEU 4.5 7.1 + - - -
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Residues in contact with VAL 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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838A PHE* 2.9 47.2 + - + +
839A ILE* 3.4 11.4 - - - +
841A SER* 1.3 80.1 + - - +
843A MET* 1.3 68.0 + - - +
845A ASP* 2.7 23.4 + - - +
846A ILE* 2.9 27.9 + - + +
862A TYR* 3.6 35.9 - - + +
934A MET* 5.2 5.2 - - - -
962A PRO* 4.1 13.2 - - + -
964A ILE* 4.7 4.7 - - + -
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Residues in contact with MET 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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766A TRP* 4.6 12.1 - - + -
770A ARG* 5.4 1.8 - - - +
839A ILE* 3.0 18.4 + - + +
840A ARG* 3.0 22.2 - - - +
842A VAL* 1.3 76.4 - - - +
844A GLU* 1.3 64.8 + - + +
846A ILE* 3.4 3.7 + - - +
847A LYS* 2.9 32.7 + - - +
933A PHE* 4.2 28.7 - - + -
934A MET* 4.3 24.2 - - + -
937A GLU* 4.7 9.4 - - - -
938A LEU* 3.5 41.0 - - + +
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Residues in contact with GLU 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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840A ARG* 2.9 26.6 + - - +
841A SER* 3.1 20.1 + - - +
843A MET* 1.3 77.3 - - + +
845A ASP* 1.3 64.1 + - - +
847A LYS* 3.3 13.7 - - - +
848A GLU* 3.0 22.5 + - - +
946C C 5.3 4.7 + - - -
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Residues in contact with ASP 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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841A SER* 2.8 23.7 + - - +
842A VAL* 2.7 17.6 + - - +
844A GLU* 1.3 68.4 - - - +
846A ILE* 1.3 69.5 + - + +
848A GLU* 2.7 15.6 + - - +
849A ILE* 2.8 19.2 + - + +
960A LEU 5.6 0.7 - - - +
961A LYS* 3.7 12.5 + - - +
962A PRO* 5.5 0.5 - - - +
964A ILE* 5.2 2.2 - - + -
954C G 2.5 69.8 + - + +
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Residues in contact with ILE 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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842A VAL* 2.9 31.8 + - + +
843A MET* 3.8 4.7 - - - +
845A ASP* 1.3 73.2 - - - +
847A LYS* 1.3 64.2 + - - +
849A ILE* 3.1 11.1 + - - +
850A ILE* 3.0 37.8 + - + +
860A ARG* 4.0 27.8 - - + -
862A TYR* 4.4 9.0 - - + -
934A MET* 6.0 2.0 - - - -
938A LEU* 3.8 27.4 - - + -
940A ILE* 5.2 1.1 - - + -
942A ILE* 4.8 4.9 - - + -
964A ILE* 4.3 13.5 - - + -
966A ILE* 3.9 23.1 - - + -
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Residues in contact with LYS 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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769A ARG* 6.0 2.0 - - - +
843A MET* 2.9 30.7 + - - +
844A GLU* 3.3 11.3 - - - +
846A ILE* 1.3 77.4 - - - +
848A GLU* 1.3 56.6 + - - +
850A ILE* 3.5 5.8 + - - +
851A GLU* 2.9 54.6 + - + +
937A GLU* 6.1 5.3 - - - +
938A LEU* 5.1 12.5 - - + +
945C C 4.3 29.1 + - - +
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Residues in contact with GLU 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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844A GLU 3.0 11.6 + - - +
845A ASP* 2.7 14.5 + - - +
847A LYS* 1.3 68.7 - - - +
849A ILE* 1.3 61.0 + - - +
850A ILE 3.1 2.0 - - - -
851A GLU* 3.1 9.0 + - + +
852A VAL* 2.6 47.0 + - + +
951C G 3.2 32.4 + - - +
954C G 3.3 32.5 + - - +
955C G 4.2 7.3 + - - +
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Residues in contact with ILE 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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845A ASP 2.8 19.1 + - - +
846A ILE* 3.5 8.5 - - - +
848A GLU* 1.3 73.3 - - - +
850A ILE* 1.3 62.8 + - + +
852A VAL* 3.7 5.1 + - - +
853A ALA* 3.7 18.7 + - - +
964A ILE* 3.1 37.5 - - + -
966A ILE* 3.9 16.8 - - + +
953C A 3.4 41.8 - - + +
954C G 3.3 47.6 - - + +
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Residues in contact with ILE 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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846A ILE* 3.0 30.8 + - + +
847A LYS* 3.9 5.4 - - - +
849A ILE* 1.3 73.9 - - - +
851A GLU* 1.3 63.7 + - + +
852A VAL 2.9 6.7 + - - -
853A ALA 3.0 18.4 + - - +
854A LYS* 3.8 25.4 - - + +
855A ILE* 5.0 2.7 - - - +
856A GLU 5.1 10.8 - - - +
938A LEU 6.1 0.9 - - - +
940A ILE* 5.0 19.5 - - + -
966A ILE* 4.0 26.9 - - + -
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Residues in contact with GLU 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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847A LYS* 2.9 50.2 + - + +
848A GLU* 3.1 9.3 + - + +
850A ILE* 1.3 76.1 - - + +
852A VAL* 1.3 60.9 + - + +
853A ALA 3.5 0.4 + - - -
945C C 4.9 7.6 + - - -
946C C 5.7 5.2 - - - +
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Residues in contact with VAL 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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848A GLU* 2.6 46.3 + - + +
849A ILE* 4.2 5.2 - - - +
850A ILE 3.0 0.2 - - - -
851A GLU* 1.3 81.6 - - + +
853A ALA* 1.3 61.2 + - + +
951C G 4.4 32.3 - - + +
952C U 3.7 36.5 - - - +
953C A 4.5 12.6 - - - +
954C G 6.0 1.3 - - - +
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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
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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