Contacts of the helix formed by residues 932 - 963 (chain A) in PDB entry 4XEK
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 PRO 932 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931A LEU* 1.4 88.0 - - + +
933A SER* 1.3 60.4 + - - +
934A SER* 4.2 10.3 - - - +
935A SER* 2.9 41.5 + - - +
936A ARG* 3.4 6.3 - - - +
997A ALA 3.4 24.9 - - - +
1000A LEU* 4.1 12.1 - - + +
1001A ALA* 3.7 22.7 - - + +
1004A ALA* 6.1 4.0 - - + -
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Residues in contact with SER 933 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931A LEU 3.5 1.6 + - - -
932A PRO* 1.3 71.8 - - - +
934A SER* 1.3 63.3 + - - +
935A SER 3.3 0.5 + - - -
936A ARG* 3.5 42.8 + - - +
937A THR* 4.5 9.4 + - - +
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Residues in contact with SER 934 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
932A PRO* 4.2 10.9 - - - +
933A SER* 1.3 81.8 + - - +
935A SER* 1.3 62.8 + - - +
936A ARG 3.5 0.2 - - - -
937A THR* 4.7 8.3 + - - -
938A GLU* 5.1 3.6 + - - +
1000A LEU* 5.7 4.0 - - - +
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Residues in contact with SER 935 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931A LEU* 4.7 1.8 - - - -
932A PRO* 2.9 29.8 + - - +
934A SER* 1.3 82.0 + - - +
936A ARG* 1.3 63.9 + - - +
937A THR 3.4 1.3 + - - -
938A GLU* 3.6 6.4 + - - +
939A ILE* 3.3 27.3 + - - +
993A ALA 5.6 0.2 - - - -
996A GLN* 5.8 1.4 + - - +
997A ALA* 3.7 31.1 - - - +
1000A LEU* 4.5 9.4 - - - +
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Residues in contact with ARG 936 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928A LEU* 2.8 47.8 + - + +
929A PRO* 3.0 22.1 + - - +
930A SER 4.9 0.2 - - - -
931A LEU* 2.9 21.4 + - + +
932A PRO* 3.4 12.8 - - - +
933A SER* 3.5 35.1 + - - +
935A SER* 1.3 78.4 - - - +
937A THR* 1.3 60.8 + - + +
939A ILE* 3.4 2.4 + - - +
940A GLU* 2.8 41.9 + - - +
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Residues in contact with THR 937 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
933A SER 4.5 10.1 + - - +
934A SER* 4.7 6.5 + - - +
935A SER 3.4 0.6 - - - -
936A ARG* 1.3 74.7 - - + +
938A GLU* 1.3 65.3 + - - +
940A GLU* 3.3 15.0 + - - +
941A GLY* 3.0 23.6 + - - -
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Residues in contact with GLU 938 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
934A SER 5.1 3.1 + - - +
935A SER* 3.6 8.5 + - - +
936A ARG 3.4 0.2 - - - -
937A THR* 1.3 80.6 + - - +
939A ILE* 1.3 67.1 + - + +
941A GLY* 3.1 3.3 + - - -
942A THR* 3.0 26.6 + - - -
993A ALA* 5.9 2.7 - - + -
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Residues in contact with ILE 939 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
924A VAL* 3.6 30.7 - - + -
928A LEU* 3.9 10.3 - - + -
931A LEU* 3.7 28.3 - - + -
935A SER* 3.3 21.8 + - - +
936A ARG 3.7 3.8 - - - +
937A THR 3.3 0.4 - - - -
938A GLU* 1.3 79.3 - - + +
940A GLU* 1.3 61.6 + - - +
942A THR* 3.2 8.7 + - - -
943A GLN* 3.0 21.9 + - - +
990A LEU* 3.9 10.7 - - + +
993A ALA* 4.0 26.5 - - + +
994A VAL* 4.2 7.4 - - + +
997A ALA* 3.9 16.4 - - + -
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Residues in contact with GLU 940 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928A LEU* 4.0 16.4 - - + +
936A ARG* 2.8 28.7 + - - +
937A THR* 3.5 15.2 - - - +
939A ILE* 1.3 76.1 - - - +
941A GLY* 1.3 61.3 + - - +
943A GLN* 3.3 20.1 + - - +
944A LYS* 3.1 40.1 + - - +
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Residues in contact with GLY 941 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
937A THR 3.0 14.2 + - - -
938A GLU* 3.1 5.3 + - - -
940A GLU* 1.3 75.5 - - - +
942A THR* 1.3 56.1 + - - +
944A LYS* 3.2 9.5 + - - +
945A LEU* 2.8 28.2 + - - +
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Residues in contact with THR 942 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
938A GLU 3.0 14.1 + - - -
939A ILE* 3.6 8.5 - - - -
941A GLY* 1.3 73.9 - - - +
943A GLN* 1.3 64.6 + - - +
945A LEU* 3.2 16.0 + - + +
946A LEU* 2.9 25.7 + - + +
986A ASP 3.9 8.7 - - - +
989A ASN* 4.6 5.3 - - + -
990A LEU* 3.5 44.8 - - + +
993A ALA* 5.1 5.9 - - - +
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Residues in contact with GLN 943 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
921A ILE* 3.4 44.7 + - + +
924A VAL* 3.6 23.7 - - + +
925A ASP* 2.9 24.6 + - - +
928A LEU* 3.8 13.9 - - - +
939A ILE 3.0 13.6 + - - +
940A GLU* 3.4 25.8 - - - +
941A GLY 3.3 0.2 - - - -
942A THR* 1.3 76.3 - - - +
944A LYS* 1.3 61.8 + - - +
946A LEU* 3.3 8.8 + - - +
947A ASN* 3.1 26.8 + - - +
990A LEU* 4.5 8.5 - - + +
89C ALA* 4.0 13.8 - - + +
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Residues in contact with LYS 944 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
940A GLU* 3.1 28.0 + - - +
941A GLY* 3.2 9.4 + - - +
943A GLN* 1.3 74.1 - - - +
945A LEU* 1.3 62.6 + - - +
947A ASN* 3.4 3.6 + - - +
948A LYS* 3.0 26.2 + - - +
88C SER* 3.3 30.6 + - - -
89C ALA* 3.9 19.9 - - + +
92C GLN* 3.4 31.5 + - - +
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Residues in contact with LEU 945 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941A GLY 2.8 12.9 + - - +
942A THR* 3.2 18.6 + - + +
944A LYS* 1.3 74.3 - - - +
946A LEU* 1.3 60.8 + - - +
948A LYS* 3.2 24.1 + - + +
949A ASP* 2.8 44.6 + - - +
986A ASP* 3.5 34.5 - - + +
989A ASN* 6.0 1.3 - - + +
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Residues in contact with LEU 946 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917A LEU* 3.6 39.3 - - + +
920A LEU* 3.9 8.7 - - + -
921A ILE* 4.7 4.0 - - + -
942A THR 2.9 17.1 + - - +
943A GLN* 3.3 6.9 + - - +
945A LEU* 1.3 75.0 - - - +
947A ASN* 1.3 58.1 + - - +
949A ASP* 3.2 5.2 + - - +
950A LEU 2.9 24.9 + - - -
983A LEU* 3.6 18.3 - - + +
986A ASP* 3.6 18.8 - - + +
987A ALA* 3.5 31.2 - - + +
990A LEU* 3.5 32.3 - - + -
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Residues in contact with ASN 947 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917A LEU* 4.0 5.9 - - - +
921A ILE* 4.4 4.3 - - - +
943A GLN 3.1 17.2 + - - +
944A LYS* 3.5 6.3 - - - +
945A LEU 3.3 0.2 - - - -
946A LEU* 1.3 76.8 - - - +
948A LYS* 1.3 56.4 + - - +
950A LEU* 3.3 0.7 + - - +
951A ALA* 2.9 23.7 + - - +
89C ALA* 2.9 31.9 + - - +
92C GLN* 2.8 40.3 + - + +
93C LEU* 3.4 34.5 - - - +
96C LEU* 3.4 15.9 - - + +
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Residues in contact with LYS 948 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
944A LYS 3.0 14.6 + - - +
945A LEU* 3.2 25.9 + - + +
947A ASN* 1.3 72.3 - - - +
949A ASP* 1.3 64.3 + - - +
951A ALA* 3.3 8.3 + - + +
952A GLU* 3.0 27.5 + - + +
92C GLN* 4.9 3.8 - - - +
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Residues in contact with ASP 949 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
945A LEU* 2.8 27.9 + - - +
946A LEU* 3.2 9.2 + - - +
948A LYS* 1.3 76.4 - - - +
950A LEU* 1.3 63.8 + - - +
952A GLU* 3.3 7.7 + - - +
953A LEU* 3.0 22.0 + - - +
979A ALA 4.7 6.2 - - - +
982A THR* 3.7 19.9 - - + +
983A LEU* 3.6 22.9 - - + +
986A ASP* 2.6 41.8 - - - +
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Residues in contact with LEU 950 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910A VAL* 4.5 4.7 - - + +
913A VAL* 4.4 0.2 - - + -
914A GLY* 3.9 34.3 - - - +
917A LEU* 3.9 11.2 - - + -
946A LEU 2.9 16.4 + - - +
947A ASN 3.8 4.5 - - - +
949A ASP* 1.3 73.6 - - - +
951A ALA* 1.3 61.1 + - - +
953A LEU* 3.2 16.5 + - + +
954A ILE* 2.9 46.2 + - + +
983A LEU* 4.2 19.5 - - + +
93C LEU* 3.4 30.7 - - + -
96C LEU* 4.6 3.8 - - + -
97C MET* 4.0 9.6 - - - -
100C LEU* 5.9 0.2 - - + -
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Residues in contact with ALA 951 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
947A ASN 2.9 15.9 + - - +
948A LYS* 3.5 12.1 - - + +
950A LEU* 1.3 76.7 - - - +
952A GLU* 1.3 56.2 + - - +
954A ILE* 3.3 6.6 + - - +
955A ASN* 2.9 29.5 + - - +
96C LEU* 4.0 27.3 - - + +
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Residues in contact with GLU 952 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
948A LYS* 3.0 13.3 + - + +
949A ASP* 3.5 11.4 - - - +
951A ALA* 1.3 77.2 - - - +
953A LEU* 1.3 62.0 + - - +
955A ASN* 3.2 9.3 + - - +
956A LYS* 3.0 60.4 + - - +
979A ALA* 4.2 13.0 - - + -
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Residues in contact with LEU 953 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
894A LEU* 4.3 13.5 - - + -
910A VAL* 4.1 32.3 - - + -
913A VAL* 4.3 23.8 - - + -
949A ASP 3.0 13.5 + - - +
950A LEU* 3.2 12.8 + - + +
952A GLU* 1.3 75.0 - - - +
954A ILE* 1.3 58.3 + - - +
956A LYS* 3.2 1.9 + - - +
957A MET* 2.8 26.9 + - - +
976A MET* 3.5 37.5 - - + +
979A ALA* 3.8 14.3 - - + +
980A SER* 4.2 17.0 - - - +
983A LEU* 4.6 3.4 - - + -
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Residues in contact with ILE 954 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910A VAL* 3.9 19.1 - - + -
950A LEU* 2.9 37.3 + - + +
951A ALA* 3.6 7.6 - - - +
953A LEU* 1.3 75.2 - - - +
955A ASN* 1.3 64.5 + - - +
957A MET* 3.2 23.4 + - + +
958A ARG* 2.9 33.6 + - + +
96C LEU* 4.0 33.7 - - + +
99C HIS* 5.5 6.5 - - + -
100C LEU* 4.0 19.1 - - + -
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Residues in contact with ASN 955 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
951A ALA 2.9 13.9 + - - +
952A GLU* 3.2 15.5 + - - +
954A ILE* 1.3 77.9 - - - +
956A LYS* 1.3 86.5 + - - +
958A ARG* 3.2 10.6 + - - +
959A LEU* 3.0 35.5 + - - +
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Residues in contact with LYS 956 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
952A GLU* 3.0 48.4 + - - +
953A LEU 3.7 4.5 - - - +
955A ASN* 1.3 90.9 + - - +
957A MET* 1.3 60.1 + - - +
959A LEU* 3.2 14.0 + - + +
960A ALA* 2.8 29.6 + - - +
972A ALA* 4.3 4.5 - - - +
975A GLN* 3.6 44.7 + - + +
976A MET* 3.6 26.5 - - + +
979A ALA* 4.2 6.5 - - + -
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Residues in contact with MET 957 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906A TYR* 3.8 19.7 - - + -
907A VAL* 3.5 29.6 - - - -
910A VAL* 3.8 28.5 - - + -
953A LEU 2.8 14.2 + - - +
954A ILE* 3.4 17.9 - - + +
956A LYS* 1.3 77.2 - - - +
958A ARG* 1.3 96.1 + - + +
960A ALA* 3.3 2.4 + - - +
961A GLN* 2.9 31.2 + - - +
976A MET* 3.6 14.5 - - + +
100C LEU* 3.6 16.8 - - + -
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Residues in contact with ARG 958 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
907A VAL* 4.4 12.3 - - - +
954A ILE* 2.9 27.9 + - + +
955A ASN* 3.2 11.9 + - - +
957A MET* 1.3 95.8 - - + +
959A LEU* 1.3 61.3 + - + +
961A GLN* 3.1 28.2 + - - +
962A GLN* 2.8 40.2 + - - +
99C HIS* 3.2 26.9 + - - +
100C LEU* 4.4 11.1 + - - +
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Residues in contact with LEU 959 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
955A ASN* 3.0 36.5 + - - +
956A LYS* 3.6 22.9 - - + +
958A ARG* 1.3 77.7 - - + +
960A ALA* 1.3 56.9 + - - +
962A GLN* 3.2 19.4 + - - +
963A ASN* 2.9 43.6 + - - +
972A ALA* 4.0 12.8 - - + -
975A GLN* 4.8 6.3 - - - +
----------------------------------------------------------
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Residues in contact with ALA 960 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906A TYR* 3.6 22.8 + - + -
956A LYS 2.8 17.8 + - - +
957A MET 3.5 5.2 - - - +
959A LEU* 1.3 76.5 - - - +
961A GLN* 1.3 61.3 + - - +
963A ASN* 3.6 1.9 - - - -
964A ALA* 3.2 18.5 + - - -
969A SER* 5.1 3.2 + - - -
972A ALA* 3.6 18.5 - - + +
973A LYS* 4.4 10.1 - - + -
976A MET* 3.6 22.0 - - - -
----------------------------------------------------------
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Residues in contact with GLN 961 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
903A PRO* 3.9 11.9 + - + +
904A GLU* 5.2 2.2 + - - +
906A TYR* 3.5 20.9 - - + +
907A VAL* 3.7 37.4 - - - +
957A MET* 2.9 19.4 + - - +
958A ARG* 3.3 36.0 + - - +
960A ALA* 1.3 76.3 - - - +
962A GLN* 1.3 64.1 + - + +
963A ASN 3.4 0.2 + - - -
964A ALA* 3.4 16.9 + - - +
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Residues in contact with GLN 962 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
958A ARG* 2.8 26.2 + - + +
959A LEU* 3.2 30.4 + - - +
961A GLN* 1.3 73.6 - - + +
963A ASN* 1.3 67.6 + - - +
964A ALA 3.4 1.3 + - - -
965A VAL* 5.2 2.3 + - - +
966A THR* 4.5 6.2 - - - +
----------------------------------------------------------
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Residues in contact with ASN 963 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959A LEU* 2.9 36.5 + - - +
960A ALA* 3.6 4.9 - - - +
962A GLN* 1.3 88.2 + - - +
964A ALA* 1.3 65.3 + - - +
965A VAL 3.2 2.5 - - - -
966A THR* 2.9 35.2 + - - +
968A LEU* 3.6 34.0 - - + +
969A SER* 3.1 24.1 - - - +
972A ALA* 5.1 1.8 - - + +
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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).
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