Contacts of the helix formed by residues 916 - 942 (chain A) in PDB entry 4K6J
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 GLN 916 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
912A PRO* 3.7 10.4 - - - +
913A LEU* 3.1 40.2 + - + +
915A HIS* 1.3 88.5 - - + +
917A ASN* 1.3 63.8 + - - +
918A VAL* 4.1 17.8 - - + +
919A THR* 3.3 13.3 + - - +
920A ASN* 3.0 26.2 + - - -
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Residues in contact with ASN 917 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
841A GLU* 5.2 0.7 - - - -
915A HIS 3.8 1.6 + - - +
916A GLN* 1.3 72.4 - - - +
918A VAL* 1.3 64.7 + - + +
920A ASN* 3.4 4.3 + - - +
921A HIS* 3.0 28.3 + - - +
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Residues in contact with VAL 918 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
841A GLU* 3.4 38.8 - - + +
898A TYR* 4.4 13.7 - - + -
912A PRO* 4.6 9.9 - - + -
916A GLN* 3.2 16.4 - - + +
917A ASN* 1.3 78.7 - - + +
919A THR* 1.3 59.8 + - - +
921A HIS* 3.3 0.7 + - - +
922A VAL* 2.9 38.1 + - + +
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Residues in contact with THR 919 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
898A TYR* 3.9 17.0 - - - +
899A ASN 3.2 27.6 - - - +
900A ARG* 3.6 11.3 - - + -
912A PRO* 2.8 26.4 - - + +
913A LEU 2.6 28.1 + - - +
914A PRO* 4.2 2.0 - - + -
916A GLN* 3.3 10.7 + - - +
917A ASN 3.2 0.4 - - - -
918A VAL* 1.3 78.1 - - - +
920A ASN* 1.3 60.0 + - - +
921A HIS 3.2 0.2 - - - -
923A GLY* 3.0 27.9 + - - -
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Residues in contact with ASN 920 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
900A ARG* 4.3 20.3 + - - +
914A PRO 3.0 27.2 + - - +
915A HIS* 3.8 8.3 + - - +
916A GLN 3.0 24.3 + - - +
917A ASN* 3.8 4.3 - - - +
919A THR* 1.3 75.8 - - - +
921A HIS* 1.3 58.4 + - - +
924A LYS* 3.2 28.9 - - - +
973A PRO* 6.1 0.3 - - - +
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Residues in contact with HIS 921 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
841A GLU* 3.0 24.8 + - + +
842A GLU* 5.9 3.8 - - + -
845A VAL* 3.5 41.0 - - + +
917A ASN 3.0 19.8 + - - +
918A VAL 3.6 2.9 - - - +
920A ASN* 1.3 80.7 - - - +
922A VAL* 1.3 62.5 + - - +
924A LYS* 4.2 2.1 - - - +
925A ALA* 3.3 21.7 + - - +
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Residues in contact with VAL 922 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
841A GLU* 3.9 24.7 - - + -
844A LEU* 3.6 28.5 - - + -
845A VAL* 3.8 24.2 - - + -
848A LEU* 4.9 0.7 - - + -
898A TYR* 3.7 34.5 - - + -
918A VAL* 2.9 20.9 + - + +
921A HIS* 1.3 76.6 - - - +
923A GLY* 1.3 60.2 + - - +
925A ALA* 2.8 5.2 + - - +
926A VAL* 2.8 38.1 + - + +
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Residues in contact with GLY 923 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
895A ILE* 3.8 4.4 - - - +
898A TYR* 3.9 16.2 - - - +
900A ARG* 3.1 24.2 + - - -
919A THR 3.0 17.7 + - - -
922A VAL* 1.3 77.0 - - - +
924A LYS* 1.3 56.7 + - - +
926A VAL* 3.3 7.7 + - - +
927A GLU* 3.0 24.8 + - - +
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Residues in contact with LYS 924 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
900A ARG* 3.6 25.0 - - - +
920A ASN 3.2 23.9 + - - +
921A HIS* 4.3 2.9 - - - +
922A VAL 3.2 0.4 - - - -
923A GLY* 1.3 74.5 - - - +
925A ALA* 1.3 57.7 + - - +
927A GLU* 3.9 2.3 - - - +
928A ASP* 3.0 58.5 + - - +
931A ARG* 5.9 0.2 - - - +
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Residues in contact with ALA 925 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
845A VAL* 4.4 19.3 - - + +
848A LEU* 4.0 20.2 - - + +
849A TRP* 5.6 3.1 - - + +
852A GLU* 4.7 3.1 - - - +
921A HIS 3.3 15.4 + - - +
922A VAL* 2.8 14.3 + - - +
924A LYS* 1.3 77.8 - - - +
926A VAL* 1.3 62.4 + - - +
928A ASP* 4.0 5.7 - - - +
929A CYS* 3.2 23.2 + - - +
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Residues in contact with VAL 926 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
848A LEU* 3.5 24.7 - - + -
891A CYS* 3.6 40.2 - - + +
894A LEU* 4.1 19.7 - - + +
895A ILE* 4.0 18.6 - - + +
898A TYR* 5.1 0.4 - - + -
922A VAL* 2.8 29.0 + - + +
923A GLY* 3.7 7.9 - - - +
925A ALA* 1.3 75.4 - - - +
927A GLU* 1.3 66.8 + - - +
929A CYS* 3.3 3.5 + - - +
930A MET* 3.0 23.3 + - + +
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Residues in contact with GLU 927 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
895A ILE* 4.3 3.3 - - - +
900A ARG* 3.2 29.1 + - - +
923A GLY 3.0 15.9 + - - +
924A LYS* 3.9 5.0 - - - +
926A VAL* 1.3 79.0 - - - +
928A ASP* 1.3 67.1 + - - +
930A MET* 3.0 12.2 + - + +
931A ARG* 3.0 39.3 + - - +
972A LEU* 3.8 18.1 - - + +
973A PRO* 4.5 0.2 - - - +
976A GLN* 2.9 47.9 + - - +
980A ILE* 4.5 14.2 - - + +
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Residues in contact with ASP 928 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852A GLU* 3.4 30.8 - - - +
924A LYS* 3.0 55.3 + - - +
925A ALA* 4.0 4.0 - - - +
926A VAL 3.3 0.2 - - - -
927A GLU* 1.3 81.8 - - - +
929A CYS* 1.3 60.9 + - - +
931A ARG* 2.9 35.3 + - - +
932A ALA* 3.2 21.7 + - - +
976A GLN* 5.8 0.5 + - - -
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Residues in contact with CYS 929 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
835A LEU* 5.7 1.3 - - - -
848A LEU* 3.8 43.3 - - + +
851A ALA* 4.1 16.8 - - - -
852A GLU* 4.2 12.3 + - + -
855A LEU* 4.6 1.3 - - - -
887A ALA* 5.4 2.7 - - - -
891A CYS* 4.2 3.1 - - - -
925A ALA 3.2 18.2 + - - +
926A VAL 3.6 4.3 - - - +
927A GLU 3.2 0.6 - - - -
928A ASP* 1.3 74.5 - - - +
930A MET* 1.3 60.9 + - - +
932A ALA* 3.1 3.6 + - - +
933A ILE* 2.8 50.2 + - - +
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Residues in contact with MET 930 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
888A LEU* 4.0 11.7 - - + -
891A CYS* 3.5 37.7 - - + +
892A GLU 4.7 1.1 - - - -
895A ILE* 5.2 3.1 - - - -
926A VAL* 3.0 12.5 + - - +
927A GLU* 3.0 13.7 + - + +
929A CYS* 1.3 76.2 - - - +
931A ARG* 1.3 63.3 + - - +
933A ILE* 3.1 8.6 + - - +
934A ILE* 3.0 34.8 + - + +
964A CYS* 4.0 17.7 - - - -
968A VAL* 3.9 34.1 - - + -
972A LEU* 5.6 0.9 - - + -
980A ILE* 3.7 32.5 - - + -
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Residues in contact with ARG 931 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852A GLU* 5.6 1.0 + - - -
924A LYS* 5.9 0.4 - - - +
927A GLU* 3.0 34.5 + - - +
928A ASP* 2.9 36.3 + - - +
930A MET* 1.3 76.4 - - - +
932A ALA* 1.3 56.2 + - - +
934A ILE* 4.1 1.7 - - - +
935A GLY* 3.1 23.2 + - - -
976A GLN* 4.9 6.5 - - - +
979A ASP* 3.2 27.8 + - - +
980A ILE* 3.7 20.9 - - + -
983A LEU* 4.3 17.7 - - + +
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Residues in contact with ALA 932 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
852A GLU* 3.8 20.2 - - + -
855A LEU* 3.9 20.3 - - + +
856A ARG* 4.3 14.1 - - + +
859A GLU* 5.3 1.4 - - - +
928A ASP 3.2 13.2 + - - +
929A CYS 3.1 8.4 + - - +
930A MET 3.1 0.8 - - - -
931A ARG* 1.3 75.9 - - - +
933A ILE* 1.3 65.1 + - - +
935A GLY* 3.3 1.6 + - - -
936A VAL* 3.1 27.2 + - - +
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Residues in contact with ILE 933 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
855A LEU* 3.5 24.9 - - + -
884A SER* 3.4 32.9 + - - +
887A ALA* 3.6 29.6 - - + -
888A LEU* 3.8 26.0 - - + +
891A CYS* 4.2 3.6 - - - -
929A CYS* 2.8 35.3 + - - +
930A MET* 3.5 9.4 - - - +
932A ALA* 1.3 75.5 - - - +
934A ILE* 1.3 62.2 + - - +
936A VAL* 3.2 5.9 + - - +
937A LEU* 3.0 29.1 + - + +
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Residues in contact with ILE 934 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
888A LEU* 3.8 28.3 - - + -
930A MET* 3.0 25.8 + - + +
931A ARG* 4.3 3.1 - - - +
933A ILE* 1.3 72.3 - - - +
935A GLY* 1.3 60.9 + - - +
937A LEU* 3.7 6.9 - - - +
938A LEU* 2.8 38.1 + - + +
964A CYS* 4.4 17.9 - - + -
980A ILE* 5.2 4.3 - - + +
983A LEU* 3.8 47.8 - - + +
984A GLY* 4.7 6.5 - - - +
987A LEU* 4.3 14.8 - - + -
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Residues in contact with GLY 935 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
859A GLU* 4.1 14.6 - - - +
931A ARG 3.1 18.6 + - - -
932A ALA* 3.3 2.7 + - - -
933A ILE 3.2 0.6 - - - -
934A ILE* 1.3 77.0 - - - +
936A VAL* 1.3 60.6 + - - +
938A LEU* 3.4 13.3 + - - +
939A ASN* 3.2 26.0 + - - +
983A LEU* 5.5 2.7 - - - +
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Residues in contact with VAL 936 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
855A LEU* 3.2 43.7 - - + +
858A LEU* 4.3 6.3 - - + +
859A GLU* 3.9 14.8 - - + +
862A THR* 5.6 1.3 - - + +
872A LEU* 5.9 0.4 - - + -
880A LEU* 3.8 33.2 - - + -
884A SER* 4.8 4.0 - - - +
932A ALA 3.1 12.7 + - - +
933A ILE 3.6 6.5 - - - +
935A GLY* 1.3 73.3 - - - +
937A LEU* 1.3 66.8 + - + +
939A ASN* 3.1 8.7 + - - +
940A LEU* 3.0 32.4 + - + +
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Residues in contact with LEU 937 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
881A ILE* 4.3 17.3 - - + +
884A SER* 4.0 22.9 - - - +
888A LEU* 4.8 2.2 - - + -
933A ILE* 3.0 34.7 + - + +
934A ILE* 3.7 6.1 - - - +
936A VAL* 1.3 78.2 - - + +
938A LEU* 1.3 57.1 + - - +
940A LEU* 3.2 6.1 + - + +
941A THR* 2.7 38.4 + - - +
951A THR* 4.2 23.3 - - + +
957A LEU* 3.9 28.5 - - + -
987A LEU* 3.8 25.4 - - + -
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Residues in contact with LEU 938 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
934A ILE* 2.8 33.1 + - + +
935A GLY* 3.5 10.8 - - - +
937A LEU* 1.3 73.6 - - - +
939A ASN* 1.3 57.6 + - - +
941A THR* 3.8 3.1 - - - -
942A ASN* 2.8 39.1 + - - +
983A LEU* 3.7 32.8 - - + +
986A GLY* 3.7 7.6 - - - -
987A LEU* 3.4 39.0 - - + +
990A ASN* 3.3 11.6 + - - +
----------------------------------------------------------
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Residues in contact with ASN 939 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
859A GLU* 2.9 47.8 + - - +
862A THR* 2.9 24.6 + - + +
863A VAL* 4.0 11.6 - - - +
869A GLN* 3.3 27.3 + - - +
935A GLY 3.2 9.7 + - - +
936A VAL* 3.1 9.9 + - + +
938A LEU* 1.3 80.5 - - - +
940A LEU* 1.3 61.9 + - - +
941A THR 3.7 0.2 + - - -
942A ASN* 4.2 9.5 + - - +
943A ASP 5.2 0.2 + - - -
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Residues in contact with LEU 940 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
862A THR* 4.2 13.5 - - + -
869A GLN* 3.7 37.9 - - + +
872A LEU* 4.3 9.2 - - + +
873A ILE* 3.7 10.9 - - + +
880A LEU* 4.0 23.3 - - + -
881A ILE* 3.7 32.5 - - + -
936A VAL* 3.0 26.8 + - + +
937A LEU* 3.8 8.1 - - + +
938A LEU 3.2 0.2 - - - -
939A ASN* 1.3 78.5 - - - +
941A THR* 1.3 63.6 + - + +
942A ASN 3.7 0.2 - - - -
944A ASN* 3.4 25.7 - - - +
947A GLY* 3.5 8.8 - - - -
951A THR* 5.2 0.2 - - - +
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Residues in contact with THR 941 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
937A LEU 2.7 22.3 + - - +
940A LEU* 1.3 80.6 - - + +
942A ASN* 1.3 67.9 + - - +
943A ASP 3.5 1.5 + - - -
944A ASN 3.8 13.1 + - - +
945A GLU* 4.5 3.1 - - - +
947A GLY 3.6 10.3 - - - +
948A SER* 3.7 15.3 - - - -
951A THR* 3.4 31.9 - - + +
987A LEU* 3.8 6.7 - - + +
990A ASN* 3.2 38.6 + - - +
991A LEU* 4.2 7.0 - - + -
----------------------------------------------------------
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Residues in contact with ASN 942 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
869A GLN* 6.0 1.9 - - - +
938A LEU 2.8 18.1 + - - +
939A ASN* 4.2 9.5 + - - +
940A LEU 3.7 1.0 - - - -
941A THR* 1.3 81.3 - - - +
943A ASP* 1.3 79.2 + - - +
945A GLU* 4.6 1.9 - - - +
990A ASN* 3.2 18.0 + - - +
993A GLU* 4.0 16.6 - - - +
----------------------------------------------------------
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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