Contacts of the helix formed by residues 932 - 963 (chain C) in PDB entry 3U3F
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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931C LEU* 1.3 94.9 - - + +
933C SER* 1.3 61.6 + - - +
934C SER* 3.3 6.3 - - - +
935C SER* 2.7 35.4 + - - +
936C ARG* 3.4 8.8 + - - +
997C ALA* 4.1 9.6 - - - +
1000C LEU* 4.9 7.4 - - + -
1001C ALA* 3.6 27.4 - - + +
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Residues in contact with SER 933 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931C LEU 3.8 1.3 + - - -
932C PRO* 1.3 70.5 - - - +
934C SER* 1.3 62.5 + - - +
935C SER 3.3 0.4 - - - -
936C ARG* 3.5 10.8 + - - +
937C THR* 3.5 23.0 + - - -
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Residues in contact with SER 934 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
932C PRO* 3.3 5.4 - - - +
933C SER* 1.3 76.9 - - - +
935C SER* 1.3 63.3 + - - +
937C THR* 3.9 14.1 + - - -
938C GLU* 4.0 7.8 + - - +
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Residues in contact with SER 935 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931C LEU* 4.2 2.9 - - - +
932C PRO* 2.7 37.0 + - - +
934C SER* 1.3 75.5 - - - +
936C ARG* 1.3 63.9 + - - -
937C THR 2.9 2.9 + - - -
938C GLU* 3.1 11.9 + - - +
939C ILE* 2.9 32.1 + - - +
996C GLN* 5.7 2.9 - - - +
997C ALA* 3.2 34.6 - - - +
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Residues in contact with ARG 936 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928C LEU* 4.4 25.4 - - + +
931C LEU* 5.5 3.5 - - + +
932C PRO 3.4 9.1 + - - +
933C SER* 3.6 15.7 - - - +
934C SER 3.5 0.2 - - - -
935C SER* 1.3 81.2 + - - +
937C THR* 1.3 55.0 - - - +
939C ILE* 4.5 0.8 - - - +
940C GLU* 3.0 41.1 + - + +
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Residues in contact with THR 937 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
933C SER* 3.5 12.1 + - - -
934C SER* 4.0 10.2 - - - -
935C SER 2.9 1.0 + - - -
936C ARG* 1.3 79.8 - - - +
938C GLU* 1.3 60.2 + - - +
940C GLU* 3.8 5.5 - - - +
941C GLY* 3.1 22.2 + - - -
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Residues in contact with GLU 938 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
934C SER 4.0 4.6 + - - +
935C SER* 3.1 18.3 + - - +
937C THR* 1.3 78.3 - - + +
939C ILE* 1.3 66.7 + - + +
941C GLY* 2.9 3.9 + - - -
942C THR* 2.9 32.4 + - + +
993C ALA* 3.0 30.3 - - + +
996C GLN* 2.9 29.1 + - - -
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Residues in contact with ILE 939 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
924C VAL* 4.2 15.3 - - + -
928C LEU* 4.0 25.1 - - + -
931C LEU* 4.9 6.1 - - + -
935C SER* 2.9 24.3 + - - +
936C ARG 4.1 2.7 - - - +
938C GLU* 1.3 79.6 - - + +
940C GLU* 1.3 63.3 + - - +
941C GLY 3.0 4.7 - - - -
942C THR* 2.8 22.3 + - - -
943C GLN* 3.1 12.3 + - - +
990C LEU* 4.5 5.6 - - + -
993C ALA* 4.3 9.4 - - + -
994C VAL* 3.6 36.6 - - + -
997C ALA* 3.9 24.7 - - + -
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Residues in contact with GLU 940 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
928C LEU* 4.5 19.8 - - + +
936C ARG* 3.0 25.8 + - + +
937C THR* 3.8 5.1 - - - +
939C ILE* 1.3 76.0 - - - +
941C GLY* 1.3 60.9 + - - +
943C GLN* 3.6 21.0 - - - +
944C LYS* 3.3 20.8 + - - +
262G SER* 5.8 5.5 - - - -
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Residues in contact with GLY 941 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
937C THR 3.1 12.0 + - - -
938C GLU* 2.9 9.8 + - - -
940C GLU* 1.3 76.0 - - - +
942C THR* 1.3 63.8 + - - +
944C LYS* 3.3 8.1 + - - +
945C LEU* 3.0 20.8 + - - +
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Residues in contact with THR 942 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
938C GLU* 2.9 14.1 + - + +
939C ILE* 2.8 19.4 + - - -
941C GLY* 1.3 71.2 - - - +
943C GLN* 1.3 53.3 + - - +
945C LEU* 2.9 18.8 + - + +
946C LEU* 2.8 38.2 + - - +
986C ASP* 5.1 3.5 - - - +
989C ASN* 4.7 11.2 - - + +
990C LEU* 2.8 42.8 - - - +
993C ALA* 5.2 5.7 - - + +
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Residues in contact with GLN 943 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
921C ILE* 3.7 25.1 + - + +
924C VAL* 3.1 26.4 - - + +
925C ASP* 2.7 29.0 + - - +
928C LEU* 4.6 2.3 - - - +
939C ILE* 3.1 15.2 + - - +
940C GLU* 3.6 29.5 - - - +
942C THR* 1.3 76.2 + - - +
944C LYS* 1.3 62.8 + - - +
946C LEU* 3.0 19.8 + - + +
947C ASN* 3.2 16.7 + - - +
990C LEU* 4.0 14.6 - - + +
263G ALA* 4.1 22.6 - - + +
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Residues in contact with LYS 944 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
940C GLU 3.3 10.4 + - - +
941C GLY* 3.6 9.9 - - - +
942C THR 3.3 0.4 - - - -
943C GLN* 1.3 77.7 - - - +
945C LEU* 1.3 63.4 + - - +
947C ASN* 3.0 13.5 + - + +
948C LYS* 3.0 20.0 + - - +
263G ALA* 5.5 1.7 - - - +
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Residues in contact with LEU 945 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
941C GLY 3.0 14.1 + - - +
942C THR* 2.9 24.2 + - + +
944C LYS* 1.3 77.6 - - - +
946C LEU* 1.3 49.4 + - - +
948C LYS* 2.8 16.6 + - + +
949C ASP* 2.7 43.7 + - - +
986C ASP* 3.1 37.5 - - + +
989C ASN* 6.0 0.7 - - + +
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Residues in contact with LEU 946 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
887C LEU* 5.5 0.2 - - + -
917C LEU* 3.9 27.4 - - + +
920C LEU* 4.5 4.0 - - + -
921C ILE* 5.1 4.5 - - + -
942C THR* 2.8 18.8 + - - +
943C GLN* 3.0 11.2 + - - +
945C LEU* 1.3 72.3 - - - +
947C ASN* 1.3 59.9 + - - +
949C ASP* 3.3 4.5 + - - +
950C LEU* 2.7 30.3 + - - +
983C LEU* 3.2 42.7 - - + +
986C ASP* 3.9 11.2 - - + -
987C ALA* 3.8 21.8 - - + +
990C LEU* 4.4 29.6 - - + -
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Residues in contact with ASN 947 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917C LEU* 4.1 6.8 - - - +
921C ILE* 3.4 23.0 - - - +
943C GLN 3.2 8.0 + - - -
944C LYS* 3.0 14.8 + - + +
946C LEU* 1.3 75.3 - - - +
948C LYS* 1.3 61.4 + - - +
950C LEU* 4.2 2.0 - - - -
951C ALA* 2.8 30.7 + - - +
263G ALA* 3.3 30.3 + - - +
266G GLU* 3.8 11.2 - - + +
267G LEU* 3.6 23.3 - - - +
270G LEU* 3.4 15.9 - - + +
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Residues in contact with LYS 948 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
944C LYS 3.0 10.5 + - - +
945C LEU* 2.8 21.8 + - + +
947C ASN* 1.3 74.7 - - - +
949C ASP* 1.3 54.8 + - - +
951C ALA* 3.1 7.7 + - - +
952C GLU* 2.7 44.4 + - - +
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Residues in contact with ASP 949 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
945C LEU* 2.7 23.1 + - - +
946C LEU* 3.4 10.1 - - - +
948C LYS* 1.3 75.0 - - - +
950C LEU* 1.3 61.0 + - - +
952C GLU* 3.2 9.8 + - - +
953C LEU* 2.9 29.0 + - - +
979C ALA* 4.9 4.1 - - - +
982C THR* 3.7 16.0 + - - +
983C LEU* 3.6 27.5 - - + +
986C ASP* 2.4 39.7 - - - +
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Residues in contact with LEU 950 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910C VAL* 4.6 5.6 - - + +
913C VAL* 5.0 0.4 - - + -
914C GLY* 4.2 24.0 - - - +
917C LEU* 3.8 14.6 - - + -
946C LEU 2.7 21.0 + - - +
947C ASN* 3.8 4.7 - - - +
949C ASP* 1.3 72.0 - - - +
951C ALA* 1.3 59.3 + - - +
953C LEU* 3.0 24.3 + - + +
954C ILE* 2.8 51.9 + - + +
983C LEU* 4.3 10.9 - - + +
267G LEU* 3.2 35.4 - - + -
270G LEU* 4.4 7.6 - - + -
271G MET* 4.6 7.2 - - - -
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Residues in contact with ALA 951 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
947C ASN 2.8 20.9 + - - +
948C LYS* 3.3 7.6 - - - +
950C LEU* 1.3 78.2 - - - +
952C GLU* 1.3 59.7 + - - +
954C ILE* 3.5 5.8 + - - +
955C ASN* 3.1 22.3 + - - +
270G LEU* 3.3 29.1 - - + +
----------------------------------------------------------
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Residues in contact with GLU 952 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
948C LYS* 2.7 25.1 + - - +
949C ASP* 3.7 9.8 - - - +
951C ALA* 1.3 72.7 - - - +
953C LEU* 1.3 59.0 - - - +
955C ASN* 3.1 7.1 + - + +
956C LYS* 2.8 58.4 + - + +
979C ALA* 4.5 7.0 - - + +
----------------------------------------------------------
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Residues in contact with LEU 953 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
894C LEU* 4.6 6.3 - - + -
910C VAL* 4.0 25.1 - - + -
913C VAL* 4.0 27.1 - - + -
949C ASP 2.9 13.8 + - - +
950C LEU* 3.0 15.7 + - + +
952C GLU* 1.3 76.0 - - - +
954C ILE* 1.3 57.1 + - - +
956C LYS* 3.7 0.9 - - - +
957C MET* 2.8 31.0 + - - +
976C MET* 3.6 42.8 - - + +
979C ALA* 3.8 12.5 - - + +
980C SER* 3.8 16.4 - - - +
983C LEU* 4.3 9.4 - - + -
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Residues in contact with ILE 954 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910C VAL* 4.3 9.2 - - + -
950C LEU* 2.8 44.3 + - + +
951C ALA 3.7 4.9 - - - +
952C GLU 3.2 0.2 - - - -
953C LEU* 1.3 75.9 - - - +
955C ASN* 1.3 64.5 + - - +
957C MET* 3.3 23.3 + - + +
958C ARG* 3.1 34.9 + - - +
270G LEU* 4.1 39.3 - - + +
271G MET* 5.0 3.1 - - - +
273G SER* 4.8 12.8 - - - +
----------------------------------------------------------
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Residues in contact with ASN 955 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
951C ALA 3.1 13.5 + - - +
952C GLU* 3.1 9.1 + - + +
954C ILE* 1.3 79.2 - - - +
956C LYS* 1.3 69.4 + - + +
958C ARG* 3.1 20.4 + - - +
959C LEU* 3.1 17.5 + - - +
----------------------------------------------------------
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Residues in contact with LYS 956 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
952C GLU* 2.8 45.6 + - - +
953C LEU* 3.8 4.7 - - - +
955C ASN* 1.3 76.7 - - - +
957C MET* 1.3 63.4 + - - +
959C LEU* 3.3 17.8 - - + +
960C ALA* 3.1 21.3 + - - +
972C CYS 4.5 3.3 - - - +
975C GLN* 3.4 46.0 + - + +
976C MET* 3.8 22.6 - - - +
979C ALA* 4.5 5.1 - - + +
----------------------------------------------------------
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Residues in contact with MET 957 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906C TYR* 3.9 13.2 - - + -
907C VAL* 4.0 26.0 - - + -
910C VAL* 3.6 34.5 - - + -
953C LEU 2.8 18.1 + - - +
954C ILE* 3.4 26.0 - - + +
955C ASN 3.2 0.2 - - - -
956C LYS* 1.3 77.6 - - - +
958C ARG* 1.3 66.3 + - - +
960C ALA* 2.9 19.6 + - - +
961C GLN* 3.1 40.0 + - - +
976C MET* 3.5 22.8 - - + +
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Residues in contact with ARG 958 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
907C VAL* 4.5 10.4 - - - +
954C ILE* 3.1 29.6 + - - +
955C ASN* 3.1 15.0 + - - +
957C MET* 1.3 88.8 - - - +
959C LEU* 1.3 62.7 + - - +
961C GLN* 2.8 40.2 + - - +
962C GLN* 3.1 40.5 + - + +
273G SER* 3.9 32.7 + - - -
----------------------------------------------------------
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Residues in contact with LEU 959 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
955C ASN* 3.1 14.9 + - - +
956C LYS* 3.3 22.4 - - + +
958C ARG* 1.3 77.6 - - - +
960C ALA* 1.3 56.5 - - - +
962C GLN* 3.5 16.2 + - - +
963C ASN* 3.0 49.0 + - - +
972C CYS* 4.3 11.0 - - + -
975C GLN* 4.2 19.5 - - - +
----------------------------------------------------------
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Residues in contact with ALA 960 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906C TYR* 4.1 16.4 - - + -
956C LYS 3.1 11.8 + - - +
957C MET 2.9 12.9 + - - +
959C LEU* 1.3 77.7 - - - +
961C GLN* 1.3 60.6 + - - +
963C ASN 3.7 1.4 - - - -
964C ALA* 3.4 20.3 + - - +
969C SER* 5.1 3.1 + - - -
972C CYS* 3.5 24.5 - - + +
973C LYS* 4.4 6.8 - - + +
976C MET* 4.1 20.4 - - + -
----------------------------------------------------------
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Residues in contact with GLN 961 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
903C PRO* 2.9 33.8 + - + +
904C GLU* 4.5 2.4 - - - +
906C TYR* 4.2 12.3 - - + -
907C VAL* 3.4 17.2 - - - +
957C MET* 3.2 25.3 - - - +
958C ARG* 2.8 40.7 + - - +
959C LEU 3.2 0.2 - - - -
960C ALA* 1.3 74.0 - - - +
962C GLN* 1.3 67.3 + - + +
963C ASN 3.1 1.6 - - - -
964C ALA* 2.9 24.5 - - - +
----------------------------------------------------------
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Residues in contact with GLN 962 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
958C ARG* 3.1 33.0 + - + +
959C LEU* 4.0 17.9 - - - +
961C GLN* 1.3 78.0 - - + +
963C ASN* 1.3 65.0 + - - +
964C ALA 3.3 3.1 + - - -
965C VAL 4.6 2.8 + - - -
966C THR* 4.8 5.7 - - - +
----------------------------------------------------------
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Residues in contact with ASN 963 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
959C LEU* 3.0 36.2 + - - +
960C ALA 3.7 4.5 - - - +
961C GLN 3.1 0.2 - - - -
962C GLN* 1.3 84.0 + - - +
964C ALA* 1.3 59.8 + - - -
965C VAL 3.4 2.9 - - - -
966C THR* 2.6 44.7 + - - +
968C LEU* 3.4 33.5 - - + +
969C SER* 3.4 10.5 - - - -
972C CYS* 4.6 6.9 - - + +
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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