Contacts of the helix formed by residues 942 - 980 (chain C) in PDB entry 7KHC
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 ASP 942 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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850C ILE* 5.4 8.3 - - - +
868C SER* 5.4 7.6 - - - -
933C VAL* 4.8 4.0 - - - +
940C GLU 3.3 4.8 + - - +
941C LYS* 1.3 77.4 - - - +
943C LYS* 1.3 67.6 + - + +
944C ARG* 3.4 9.1 + - - +
945C ALA* 2.7 41.4 + - - +
946C LEU* 3.2 12.4 + - - +
1048C LYS* 2.4 30.8 + - - +
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Residues in contact with LYS 943 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
867C GLU* 3.2 46.1 + - + +
868C SER* 4.3 17.9 - - - +
942C ASP* 1.3 72.5 - - + +
944C ARG* 1.3 61.7 + - - +
946C LEU* 3.0 17.4 + - - +
947C GLU* 2.9 40.3 + - + +
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Residues in contact with ARG 944 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
866C ASP* 2.3 36.9 + - - -
868C SER* 3.6 19.7 - - - +
870C ILE* 3.3 36.0 + - + +
871C VAL 3.2 22.6 + - - -
872C TYR* 4.5 5.3 - - - +
873C ILE* 3.6 29.3 - - - +
931C VAL* 4.3 8.4 - - + +
933C VAL* 5.1 7.6 - - + -
942C ASP* 3.2 7.6 + - - +
943C LYS* 1.3 81.0 - - + +
945C ALA* 1.3 64.7 + - - +
947C GLU* 3.1 26.7 + - - +
948C ILE* 2.9 44.7 + - + +
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Residues in contact with ALA 945 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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933C VAL* 4.4 24.3 - - + +
935C THR* 5.4 6.3 - - + -
941C LYS* 4.4 14.4 - - + +
942C ASP* 2.7 33.0 + - - +
944C ARG* 1.3 72.8 - - - +
946C LEU* 1.3 58.7 + - - +
948C ILE* 3.2 8.5 + - - +
949C GLU* 2.9 34.3 + - + +
1048C LYS* 5.1 1.6 - - - +
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Residues in contact with LEU 946 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941C LYS* 4.1 35.2 - - + +
942C ASP 3.2 11.6 + - - +
943C LYS* 3.0 16.6 + - + +
945C ALA* 1.3 76.2 - - - +
947C GLU* 1.3 59.7 + - + +
949C GLU* 3.2 12.1 + - + +
950C GLU* 2.9 29.3 + - - +
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Residues in contact with GLU 947 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
866C ASP* 5.4 0.2 - - - +
867C GLU* 5.0 4.2 - - - +
943C LYS* 2.9 29.9 + - + +
944C ARG* 3.1 31.7 + - - +
946C LEU* 1.3 75.7 - - + +
948C ILE* 1.3 60.0 + - + +
950C GLU* 3.2 9.0 + - - +
951C MET* 2.9 36.1 + - + +
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Residues in contact with ILE 948 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
873C ILE* 4.9 12.3 - - + -
931C VAL* 4.7 21.5 - - + +
932C GLN* 5.5 1.1 - - - +
933C VAL* 5.1 17.5 - - + +
944C ARG* 2.9 43.0 + - + +
945C ALA* 3.2 9.2 + - - +
947C GLU* 1.3 78.8 - - + +
949C GLU* 1.3 59.3 + - + +
951C MET* 3.3 21.5 + - + +
952C GLN* 2.9 53.0 + - + +
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Residues in contact with GLU 949 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941C LYS* 3.5 34.3 + - - +
945C ALA* 2.9 20.6 + - + +
946C LEU* 3.2 12.5 + - + +
948C ILE* 1.3 77.2 - - + +
950C GLU* 1.3 57.4 + - - +
952C GLN* 3.9 9.5 - - - +
953C LEU* 2.9 32.6 + - - +
1036C ILE* 4.4 22.9 - - + +
1037C THR* 4.0 22.2 + - - +
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Residues in contact with GLU 950 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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946C LEU 2.9 13.9 + - - +
947C GLU* 3.5 11.4 - - - +
948C ILE 3.2 0.2 - - - -
949C GLU* 1.3 77.3 - - - +
951C MET* 1.3 71.0 + - - +
953C LEU* 3.7 8.7 - - + +
954C LYS* 3.0 41.3 + - - +
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Residues in contact with MET 951 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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873C ILE* 5.2 13.9 - - + -
947C GLU* 2.9 23.3 + - + +
948C ILE* 3.6 23.6 - - + +
950C GLU* 1.3 84.4 + - - +
952C GLN* 1.3 58.3 + - + +
954C LYS* 3.9 7.2 - - + +
955C GLN* 2.9 32.5 + - + +
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Residues in contact with GLN 952 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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932C GLN* 4.0 21.8 + - - +
948C ILE* 2.9 43.5 + - + +
949C GLU* 3.9 7.3 - - - +
951C MET* 1.3 77.5 - - + +
953C LEU* 1.3 62.6 + - - +
955C GLN* 3.2 6.2 + - - +
956C ALA* 2.9 26.2 + - - +
1036C ILE* 3.8 27.1 - - + +
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Residues in contact with LEU 953 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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949C GLU 2.9 17.7 + - - +
950C GLU* 3.7 7.9 - - + +
952C GLN* 1.3 77.0 - - - +
954C LYS* 1.3 65.7 + - - +
956C ALA* 3.2 1.8 + - + +
957C LYS* 2.9 28.2 + - + +
1029C LEU* 6.0 0.9 - - + -
1033C ARG* 3.4 55.0 - - + +
1036C ILE* 4.4 16.9 - - + +
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Residues in contact with LYS 954 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950C GLU* 3.0 36.1 + - - +
951C MET* 3.9 7.3 - - + +
953C LEU* 1.3 78.4 - - - +
955C GLN* 1.3 65.7 + - - +
957C LYS* 3.4 9.6 + - + +
958C LYS* 2.9 43.8 + - + +
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Residues in contact with GLN 955 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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951C MET* 2.9 20.0 + - + +
952C GLN* 3.6 6.3 - - - +
954C LYS* 1.3 85.3 + - - +
956C ALA* 1.3 62.9 + - - +
958C LYS* 3.2 26.4 + - - +
959C ASP* 2.9 56.4 + - - +
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Residues in contact with ALA 956 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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952C GLN 2.9 16.5 + - - +
953C LEU* 3.7 3.8 - - + +
955C GLN* 1.3 77.0 - - - +
957C LYS* 1.3 63.4 + - - +
959C ASP* 3.2 6.4 + - - +
960C LEU* 2.9 34.3 + - + +
1029C LEU* 6.1 0.7 - - - -
1032C LYS* 4.0 30.5 - - + +
1036C ILE* 4.1 8.7 - - + -
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Residues in contact with LYS 957 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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953C LEU* 2.9 20.3 + - + +
954C LYS* 3.5 12.6 - - - +
956C ALA* 1.3 76.7 - - - +
958C LYS* 1.3 64.2 - - - +
960C LEU* 3.2 1.7 + - - +
961C SER* 2.9 26.2 + - - +
1025C PHE* 6.2 0.2 - - + -
1029C LEU* 4.4 29.6 - - + +
1033C ARG* 5.2 9.0 - - - +
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Residues in contact with LYS 958 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A GLU* 4.3 25.0 + - - +
954C LYS* 2.9 33.7 + - + +
955C GLN* 3.2 29.1 + - - +
957C LYS* 1.3 75.4 - - - +
959C ASP* 1.3 63.3 + - - +
961C SER* 2.5 22.1 + - - +
962C GLU* 2.8 39.5 + - + +
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Residues in contact with ASP 959 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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731C ARG* 4.0 20.4 + - - +
955C GLN* 2.9 43.6 + - - +
956C ALA* 3.7 6.7 - - - +
958C LYS* 1.3 85.2 + - - +
960C LEU* 1.3 68.4 + - + +
962C GLU* 3.2 9.1 + - - +
963C GLU* 3.0 24.4 + - - +
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Residues in contact with LEU 960 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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956C ALA* 2.9 27.7 + - + +
957C LYS 3.8 3.1 - - - +
959C ASP* 1.3 80.4 - - + +
961C SER* 1.3 63.0 + - - +
963C GLU* 3.1 24.6 - - + +
964C LEU 3.0 19.1 + - - -
1025C PHE* 3.2 31.7 - - + +
1028C LYS* 5.1 25.4 - - + +
1029C LEU* 4.3 18.4 - - + -
1032C LYS* 4.3 22.7 - - + +
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Residues in contact with SER 961 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
957C LYS* 2.9 15.8 + - - +
958C LYS* 2.5 28.6 + - - +
960C LEU* 1.3 75.3 - - - +
962C GLU* 1.3 61.5 + - - +
964C LEU* 3.8 3.8 - - - +
965C GLN* 2.9 41.9 + - - +
1025C PHE* 3.6 15.3 - - - -
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Residues in contact with GLU 962 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A GLU* 5.4 0.9 - - - +
731C ARG* 4.8 19.9 + - - +
958C LYS* 2.8 45.3 + - + +
959C ASP* 3.2 15.9 - - - +
961C SER* 1.3 76.9 + - - +
963C GLU* 1.3 64.0 + - - +
965C GLN* 3.2 8.3 + - - +
966C ILE* 3.0 32.5 + - + +
1402C 1N7 2.6 59.8 + - - +
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Residues in contact with GLU 963 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750C ILE* 4.7 23.2 - - + +
959C ASP 3.0 14.4 + - - +
960C LEU* 3.1 30.7 - - + +
962C GLU* 1.3 75.6 - - - +
964C LEU* 1.3 87.4 + - - +
966C ILE* 3.3 5.0 + - - -
967C LEU* 2.9 48.8 + - + +
1024C GLU* 4.1 13.5 - - - +
1025C PHE* 4.0 8.5 - - - -
1028C LYS* 5.9 2.2 + - - -
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Residues in contact with LEU 964 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
960C LEU 3.0 13.4 + - - +
961C SER* 3.8 4.0 - - - +
963C GLU* 1.3 94.2 - - - +
965C GLN* 1.3 63.0 + - + +
967C LEU* 3.8 4.2 - - + +
968C GLU* 2.9 58.1 + - + +
1021C LEU* 4.2 24.9 - - + +
1022C LYS* 3.8 28.9 - - + +
1024C GLU* 5.3 0.9 - - - +
1025C PHE* 3.7 34.8 - - + -
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Residues in contact with GLN 965 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
961C SER* 2.9 31.7 + - - +
962C GLU* 3.8 8.1 - - - +
964C LEU* 1.3 81.0 - - + +
966C ILE* 1.3 65.1 + - + +
968C GLU* 3.3 5.7 + - - +
969C ALA* 2.9 24.9 + - - +
994C ARG* 5.2 0.5 + - - -
1402C 1N7 4.3 20.7 - - + +
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Residues in contact with ILE 966 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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725C GLN* 4.9 1.1 - - - +
726C TYR* 5.1 0.4 - - + -
731C ARG* 4.7 11.4 - - - -
733C VAL* 4.1 28.7 - - + -
748C ILE* 3.5 24.9 - - + +
750C ILE* 5.0 8.3 - - + -
962C GLU* 3.0 23.1 + - + +
963C GLU* 3.9 3.8 - - - +
965C GLN* 1.3 76.2 - - - +
967C LEU* 1.3 65.5 + - + +
969C ALA* 3.2 4.7 + - - +
970C GLY 3.0 18.7 + - - -
1402C 1N7 3.2 61.1 - - + +
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Residues in contact with LEU 967 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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748C ILE* 4.3 29.2 - - + +
750C ILE* 4.6 22.0 - - + -
963C GLU* 2.9 40.6 + - - +
964C LEU* 3.9 5.2 - - + +
966C ILE* 1.3 82.4 - - + +
968C GLU* 1.3 58.9 + - + +
970C GLY* 3.3 1.7 + - - -
971C LEU* 2.9 28.5 + - - +
1021C LEU* 4.9 27.0 - - + +
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Residues in contact with GLU 968 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
964C LEU* 2.9 49.7 + - + +
965C GLN* 3.7 5.8 - - - +
966C ILE 3.2 0.2 - - - -
967C LEU* 1.3 75.2 - - - +
969C ALA* 1.3 60.5 + - - +
971C LEU* 3.2 10.5 + - - +
972C PHE* 2.9 35.6 + - + +
994C ARG* 4.1 6.3 - - - +
1018C TYR* 2.9 50.5 - - + +
1021C LEU* 4.0 12.8 - - - +
1022C LYS* 3.7 14.8 - - + +
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Residues in contact with ALA 969 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
965C GLN 2.9 16.9 + - - +
966C ILE 3.2 3.6 + - - +
968C GLU* 1.3 76.9 - - - +
970C GLY* 1.3 55.4 + - - +
972C PHE* 3.4 1.6 + - - +
973C SER* 2.9 29.1 + - - -
994C ARG* 3.4 21.9 - - - +
1402C 1N7 3.6 40.2 - - + +
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Residues in contact with GLY 970 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725C GLN* 6.2 0.2 - - - -
735C LYS* 6.2 1.6 - - - -
747C GLY* 5.5 6.8 - - - -
748C ILE* 4.8 20.9 - - - -
966C ILE 3.0 14.0 + - - -
967C LEU 3.3 2.9 + - - -
969C ALA* 1.3 77.7 - - - +
971C LEU* 1.3 61.6 + - - +
973C SER* 2.6 26.8 + - - -
974C ARG* 3.0 9.5 + - - +
1402C 1N7 4.7 4.4 - - - +
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Residues in contact with LEU 971 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745C GLU* 3.3 29.6 - - - +
747C GLY* 5.6 1.0 - - - -
967C LEU 2.9 17.5 + - - +
968C GLU* 3.2 10.3 + - - +
970C GLY* 1.3 74.8 - - - +
972C PHE* 1.3 66.7 + - + +
974C ARG* 3.1 8.4 + - - +
975C ILE* 2.9 55.6 + - + +
1014C LEU* 3.8 21.5 - - + +
1017C GLN* 4.1 4.3 - - + -
1018C TYR* 4.0 27.1 - - + +
1021C LEU* 4.0 16.4 - - + -
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Residues in contact with PHE 972 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
968C GLU* 2.9 16.5 + - + +
969C ALA 3.8 3.1 - - - +
971C LEU* 1.3 80.3 - - + +
973C SER* 1.3 67.4 + - - +
975C ILE* 3.1 6.6 + - + +
976C ARG* 2.9 23.2 + - - +
994C ARG* 3.2 67.5 - - + +
995C ASP* 4.5 8.7 - - + -
997C TRP* 3.9 19.0 - + + -
998C LEU* 3.3 34.8 - - + -
1018C TYR* 3.4 38.8 - + - -
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Residues in contact with SER 973 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C LYS* 5.2 8.6 + - - -
969C ALA 2.9 14.6 + - - -
970C GLY* 2.6 22.7 + - - -
972C PHE* 1.3 77.4 - - - +
974C ARG* 1.3 57.3 + - - +
976C ARG* 3.2 10.7 + - - +
977C ALA* 2.9 26.2 + - - +
997C TRP* 5.4 1.3 - - - -
1402C 1N7 6.3 5.8 - - - -
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Residues in contact with ARG 974 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741C MET* 3.1 39.5 + - + +
742C TYR 3.3 17.4 + - - -
743C PRO* 2.8 34.8 + - - +
745C GLU* 3.6 14.9 - - - +
746C ALA 3.6 7.0 - - - +
747C GLY 5.2 6.1 - - - +
970C GLY 3.0 8.7 + - - +
971C LEU* 3.6 9.4 - - - +
973C SER* 1.3 79.3 + - - +
975C ILE* 1.3 66.5 + - - +
977C ALA* 3.1 8.7 + - + +
978C VAL* 2.9 25.1 + - + +
1010C GLN* 6.3 1.4 - - - -
1014C LEU* 3.9 23.7 - - + +
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Residues in contact with ILE 975 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
971C LEU* 2.9 30.8 + - + +
972C PHE* 3.1 10.7 + - + +
974C ARG* 1.3 76.0 - - - +
976C ARG* 1.3 58.1 + - - +
978C VAL* 2.9 24.1 - - - +
979C LEU* 2.9 15.6 + - + +
997C TRP* 4.3 29.4 - - + +
998C LEU* 3.3 35.4 - - + -
1011C LEU* 3.9 18.6 - - + +
1014C LEU* 3.2 32.3 - - + -
1015C ALA 4.8 0.2 - - - +
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Residues in contact with ARG 976 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
972C PHE 2.9 12.7 + - - +
973C SER* 3.4 11.0 - - - +
975C ILE* 1.3 78.9 - - - +
977C ALA* 1.3 62.4 + - - +
979C LEU* 3.1 15.2 + - - +
980C VAL* 3.1 25.7 + - + +
986C ALA* 3.8 26.8 - - + +
989C LEU* 3.6 20.6 - - + -
997C TRP* 3.6 12.8 - - + -
1402C 1N7 3.3 69.3 + - - +
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Residues in contact with ALA 977 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
738C GLU* 5.4 7.9 - - - +
973C SER 2.9 14.7 + - - +
974C ARG* 3.1 13.6 + - + +
976C ARG* 1.3 76.1 - - - +
978C VAL* 1.3 57.7 + - - +
980C VAL* 3.0 25.9 - - - +
981C ALA* 4.4 1.9 + - - +
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Residues in contact with VAL 978 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
974C ARG* 2.9 15.3 + - + +
975C ILE* 2.9 27.4 - - - +
977C ALA* 1.3 76.8 - - - +
979C LEU* 1.3 64.4 + - - +
980C VAL 3.2 0.4 - - - -
981C ALA* 3.0 27.1 + - + +
1002C LEU* 4.5 3.9 - - + +
1007C LYS* 4.7 19.7 - - + +
1010C GLN* 4.4 19.5 - - + +
1011C LEU* 3.5 27.4 - - + +
1014C LEU* 5.1 5.8 - - + -
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Residues in contact with LEU 979 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
975C ILE* 2.9 21.4 + - + +
976C ARG* 3.1 6.4 + - - +
978C VAL* 1.3 79.6 - - + +
980C VAL* 1.3 61.5 + - + +
981C ALA 3.3 8.1 - - - +
982C GLY 4.8 0.2 - - - -
983C GLY 3.3 17.6 - - - +
984C VAL* 4.6 0.3 - - - -
985C GLU* 3.9 18.6 - - + +
989C LEU* 3.6 39.3 - - + -
997C TRP* 4.9 11.7 - - + +
1000C LEU* 4.7 16.4 - - + -
1001C GLY 4.4 16.6 - - - +
1002C LEU* 4.7 15.2 - - + +
1011C LEU* 4.9 11.4 - - + -
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Residues in contact with VAL 980 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
976C ARG* 3.1 25.0 + - + +
977C ALA* 3.0 26.5 - - - +
979C LEU* 1.3 77.0 - - + +
981C ALA* 1.3 61.1 + - + +
982C GLY 3.6 1.2 + - - -
983C GLY 3.7 0.9 + - - -
984C VAL* 3.2 52.9 + - + +
985C GLU 5.0 2.7 - - - +
986C ALA* 5.2 6.1 - - + -
989C LEU* 6.5 0.2 - - + -
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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