Contacts of the helix formed by residues 924 - 956 (chain C) in PDB entry 5NC5
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 924 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562C SER* 3.1 28.4 + - - +
563C PHE 3.3 13.7 - - - +
565C PRO* 4.0 15.4 - - - +
921C LEU* 6.1 0.3 - - - +
922C THR* 3.0 20.8 + - - +
923C ASN* 1.3 73.2 - - - +
925C VAL* 1.3 66.6 + - - +
926C TYR* 3.1 19.0 + - - +
927C PHE* 3.0 22.9 + - - +
928C GLN* 3.1 18.0 + - - +
1002C ALA* 3.8 20.1 - - - +
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Residues in contact with VAL 925 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463C THR* 3.8 12.3 - - + -
466C ILE* 3.9 35.0 - - + -
467C TYR* 4.3 10.7 - - + -
562C SER 4.2 0.4 + - - +
563C PHE* 3.0 36.1 + - + +
564C LEU* 4.5 8.5 - - + -
869C SER* 3.7 22.9 - - - +
924C ASP* 1.3 78.1 - - - +
926C TYR* 1.3 66.9 + - + +
928C GLN* 3.4 12.1 + - - +
929C VAL* 3.2 23.3 + - + +
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Residues in contact with TYR 926 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C TYR* 4.0 10.1 + - - -
392C THR* 4.9 0.7 + - - -
393C LEU* 3.5 32.7 - - + +
396C PHE* 4.0 5.1 - + - -
466C ILE* 5.1 3.6 - - + -
470C PHE* 4.1 13.9 - + - -
564C LEU* 3.7 22.1 - - + +
565C PRO* 3.7 26.0 - - + -
924C ASP* 3.1 7.1 + - - +
925C VAL* 1.3 78.0 - - + +
927C PHE* 1.3 60.5 + - - +
929C VAL* 3.2 6.3 + - - +
930C GLY* 2.9 23.4 + - - -
999C ALA* 3.8 24.6 - - + +
1002C ALA* 3.7 38.0 - - + +
1003C VAL* 3.2 31.3 - - + +
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Residues in contact with PHE 927 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556C PHE* 5.2 0.2 - + - -
559C LEU* 3.7 16.4 - - + -
912C ALA* 3.9 20.2 - - + -
913C LEU* 3.9 28.0 - - + -
916C ALA* 3.8 24.7 - - + -
922C THR 3.7 15.9 - - - +
923C ASN* 3.5 31.4 - - - -
924C ASP* 3.0 15.0 + - - +
926C TYR* 1.3 76.7 - - - +
928C GLN* 1.3 51.4 + - - +
930C GLY* 3.0 3.8 + - - +
931C LEU* 2.7 60.8 + - + +
1002C ALA 4.2 8.2 + - - +
1006C GLY* 4.3 13.2 - - - -
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Residues in contact with GLN 928 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467C TYR* 2.3 38.9 + - + +
562C SER 5.7 0.8 + - - -
869C SER* 3.4 30.1 + - - +
870C GLY* 4.6 3.4 - - - +
873C ALA* 3.9 13.8 - - + +
876C LEU* 5.2 1.3 - - + +
877C TYR* 3.3 28.3 - - + +
923C ASN* 3.8 17.8 + - - +
924C ASP* 3.1 19.6 + - - +
925C VAL* 3.7 9.2 - - - +
926C TYR 3.2 0.2 - - - -
927C PHE* 1.3 73.4 - - - +
929C VAL* 1.3 64.1 + - - +
931C LEU* 3.6 7.1 + - - +
932C LEU* 3.3 24.4 + - - +
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Residues in contact with VAL 929 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400C LEU* 4.8 6.3 - - + -
453C PHE* 4.5 11.8 - - + -
456C MET* 4.0 5.6 - - + -
467C TYR* 3.7 27.6 - - + -
470C PHE* 3.9 47.1 - - + -
925C VAL* 3.2 16.8 + - + +
926C TYR* 3.6 9.4 - - - +
927C PHE 3.2 0.2 - - - -
928C GLN* 1.3 79.1 - - - +
930C GLY* 1.3 62.1 + - - +
932C LEU* 3.2 8.6 + - - +
933C THR* 2.8 32.3 + - - +
1003C VAL* 6.1 2.0 - - + -
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Residues in contact with GLY 930 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
912C ALA* 5.7 1.1 - - - -
926C TYR 2.9 14.4 + - - -
927C PHE* 3.0 6.3 + - - -
929C VAL* 1.3 74.4 - - - +
931C LEU* 1.3 55.7 + - - +
932C LEU 2.9 5.8 - - - -
933C THR* 3.2 0.7 + - - -
934C THR* 2.9 33.2 + - - -
1003C VAL 5.1 1.3 - - - -
1006C GLY* 5.4 2.2 - - - -
1007C VAL* 3.1 32.6 - - - +
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Residues in contact with LEU 931 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556C PHE* 3.7 28.5 - - + -
877C TYR* 3.4 38.2 - - + +
909C VAL* 3.8 33.9 - - + +
912C ALA* 4.2 20.0 - - + -
913C LEU* 5.2 0.7 - - + -
923C ASN* 5.2 0.2 - - - +
927C PHE* 2.7 38.6 + - + +
928C GLN 3.8 1.1 - - - +
929C VAL 3.3 0.8 - - - -
930C GLY* 1.3 71.3 - - - +
932C LEU* 1.3 57.2 + - - +
934C THR* 3.8 7.1 - - - +
935C ILE* 3.5 26.3 + - - +
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Residues in contact with LEU 932 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452C VAL* 3.5 28.0 - - + +
453C PHE* 4.6 6.3 - - + -
456C MET* 3.9 23.3 - - + -
876C LEU* 3.5 33.2 - - + +
877C TYR* 3.3 30.3 - - + -
880C SER* 4.1 22.2 - - - +
928C GLN 3.3 14.4 - - - +
929C VAL* 3.4 10.1 - - - +
930C GLY 2.9 0.2 - - - -
931C LEU* 1.3 74.8 - - - +
933C THR* 1.3 66.5 + - - +
934C THR 3.2 0.7 - - - -
935C ILE* 3.2 14.0 + - + +
936C GLY 3.2 16.5 + - - -
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Residues in contact with THR 933 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400C LEU* 4.4 12.4 - - + +
404C LEU* 4.6 13.2 - - + -
449C LEU* 4.6 1.5 - - + +
453C PHE* 3.2 29.8 - - + -
474C ILE* 5.5 0.4 - - + -
929C VAL* 2.8 19.9 + - - +
930C GLY* 3.7 6.9 - - - -
932C LEU* 1.3 77.1 - - - +
934C THR* 1.3 49.4 + - - -
936C GLY* 3.1 3.0 + - - +
937C LEU* 2.8 56.2 + - + +
982C PHE* 4.5 13.2 - - + -
1007C VAL* 4.2 9.2 - - + -
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Residues in contact with THR 934 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
908C GLY* 3.3 39.9 - - - +
909C VAL* 3.4 16.6 - - + +
912C ALA* 4.1 9.0 - - - +
930C GLY 2.9 19.4 + - - -
931C LEU* 3.8 9.0 - - - -
933C THR* 1.3 72.7 - - - +
935C ILE* 1.3 59.6 + - - +
937C LEU* 3.7 9.5 - - - +
938C SER* 2.7 36.2 + - - +
1007C VAL* 4.2 8.3 + - - -
1010C GLY* 4.0 15.8 - - - -
1014C ALA* 5.5 0.2 - - + -
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Residues in contact with ILE 935 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452C VAL* 3.7 17.3 - - + -
877C TYR* 4.7 10.1 - - + +
880C SER* 4.9 1.8 - - - -
881C LEU* 3.6 31.0 - - + -
884C VAL* 4.4 14.4 - - + -
902C MET* 4.8 3.8 - - + -
905C VAL* 3.8 36.4 - - + +
909C VAL* 5.1 3.1 - - + -
931C LEU 3.5 16.1 + - - +
932C LEU* 3.2 25.9 + - + +
934C THR* 1.3 78.2 - - - +
936C GLY* 1.3 65.2 + - - +
938C SER* 4.1 1.6 - - - -
939C ALA* 3.2 22.7 + - - +
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Residues in contact with GLY 936 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448C VAL* 3.8 10.6 - - - +
449C LEU* 3.4 25.1 - - - +
452C VAL* 4.1 15.0 - - - +
884C VAL* 6.1 0.4 - - - -
932C LEU 3.2 4.6 + - - -
933C THR 3.1 7.4 + - - -
935C ILE* 1.3 85.1 - - - +
937C LEU* 1.3 56.6 + - - +
939C ALA* 3.5 4.4 + - - +
940C LYS* 3.0 23.6 + - - +
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Residues in contact with LEU 937 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404C LEU* 3.6 31.4 - - + -
449C LEU* 4.3 6.3 - - + -
933C THR* 2.8 40.5 + - + +
934C THR* 3.7 9.9 - - - +
936C GLY* 1.3 70.9 - - - +
938C SER* 1.3 65.0 + - - +
940C LYS* 3.3 15.3 + - + +
941C ASN* 3.2 22.9 + - - -
982C PHE* 3.6 30.7 - - + -
1007C VAL* 4.5 10.5 - - + +
1011C MET* 3.7 36.7 - - + +
1014C ALA* 5.3 1.1 - - + -
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Residues in contact with SER 938 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
904C VAL* 3.2 37.8 - - - +
905C VAL* 3.5 12.0 + - - -
908C GLY* 3.4 14.7 - - - -
934C THR* 2.7 24.1 + - - +
935C ILE 4.1 1.6 - - - -
937C LEU* 1.3 74.0 - - - +
939C ALA* 1.3 61.2 + - - +
941C ASN* 3.5 4.0 + - - +
942C ALA 3.2 16.1 + - - -
1014C ALA* 3.3 27.6 - - - +
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Residues in contact with ALA 939 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448C VAL* 4.1 22.7 - - + -
884C VAL* 4.8 8.5 - - + -
888C LEU* 5.0 0.2 - - + -
901C VAL* 3.9 23.3 - - + +
902C MET* 5.4 3.1 - - - -
904C VAL* 3.9 2.9 - - + +
905C VAL* 5.4 2.0 - - + +
935C ILE* 3.2 17.1 + - + +
936C GLY 3.7 3.6 - - - +
938C SER* 1.3 76.8 - - - +
940C LYS* 1.3 65.7 + - - +
942C ALA* 3.0 2.4 + - - +
943C ILE* 2.8 29.7 + - - +
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Residues in contact with LYS 940 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404C LEU* 6.2 0.4 - - + +
407C ASP* 3.2 18.7 + - - +
445C ILE* 4.1 29.3 - - + +
448C VAL* 4.1 12.2 - - + +
449C LEU* 4.8 6.7 - - + -
936C GLY 3.0 17.8 + - - +
937C LEU* 3.3 16.3 + - + +
939C ALA* 1.3 77.2 - - - +
941C ASN* 1.3 86.6 + - - +
943C ILE* 3.6 6.2 + - - +
944C LEU* 3.3 32.1 + - + +
978C THR* 2.4 37.1 + - - -
979C SER* 3.3 16.2 + - - +
982C PHE* 6.1 0.4 - - - +
1011C MET* 4.4 6.3 - - + -
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Residues in contact with ASN 941 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
937C LEU 3.2 8.7 + - - +
938C SER 3.9 5.2 - - - +
940C LYS* 1.3 104.9 + - - +
942C ALA* 1.3 62.7 + - - +
944C LEU* 3.4 11.9 + - - -
945C ILE* 3.5 11.1 + - - +
975C ILE* 3.7 30.5 - - + +
979C SER* 3.3 6.2 + - - -
1011C MET* 3.6 7.0 - - - +
1014C ALA 2.9 28.8 + - - +
1015C THR* 3.1 26.5 + - - +
1018C ALA* 4.6 7.2 - - + -
1019C ILE* 5.7 1.6 - - + -
1022C VAL* 5.5 0.4 - - - -
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Residues in contact with ALA 942 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
901C VAL* 3.7 28.3 - - + -
904C VAL* 4.0 5.2 - - + -
938C SER 3.2 12.8 + - - +
939C ALA 3.0 7.8 + - - +
941C ASN* 1.3 76.6 - - - +
943C ILE* 1.3 52.0 + - - +
945C ILE* 3.1 3.5 + - - +
946C VAL* 2.7 39.4 + - - +
1022C VAL* 3.8 32.0 - - + +
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Residues in contact with ILE 943 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441C ALA* 4.2 19.3 - - + +
444C GLY* 3.8 11.7 - - - +
445C ILE* 4.6 4.5 - - + +
448C VAL* 3.6 34.8 - - + -
888C LEU* 3.7 22.0 - - + -
892C TYR* 3.6 25.6 - - + +
897C ILE* 6.0 0.4 - - + -
901C VAL* 4.5 11.7 - - + -
939C ALA 2.8 24.8 + - - +
940C LYS* 3.9 6.5 - - - +
942C ALA* 1.3 69.1 - - - +
944C LEU* 1.3 64.3 + - - +
946C VAL* 4.4 3.8 - - - +
947C GLU* 2.8 42.4 + - + +
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Residues in contact with LEU 944 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
411C VAL* 3.9 21.5 - - + -
441C ALA* 4.4 10.3 - - + -
445C ILE* 3.9 25.6 - - + -
940C LYS* 3.3 33.9 + - + +
941C ASN* 3.8 4.7 - - - +
942C ALA 3.2 1.0 - - - -
943C ILE* 1.3 80.9 - - - +
945C ILE* 1.3 63.9 + - - +
947C GLU* 4.9 0.2 - - - -
948C PHE* 3.8 1.7 + - - +
971C ARG* 2.9 51.1 + - - +
974C PRO* 5.1 2.9 - - + -
975C ILE* 3.4 38.8 - - + +
978C THR* 4.8 2.2 - - + +
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Residues in contact with ILE 945 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527C TYR* 4.6 2.5 - - - +
941C ASN 3.5 5.0 + - - +
942C ALA 3.1 6.7 + - - +
944C LEU* 1.3 79.4 - - - +
946C VAL* 1.3 65.9 + - + +
948C PHE* 3.9 1.9 - - - +
949C ALA* 3.1 24.6 + - + +
964C THR* 5.4 3.6 - - + +
967C ALA* 4.1 7.6 - - + +
968C VAL* 4.2 36.6 - - + -
971C ARG* 4.8 6.1 - - + -
975C ILE* 3.9 23.6 - - + -
1018C ALA 4.5 0.7 - - - +
1019C ILE* 4.3 16.6 - - + -
1022C VAL* 4.0 25.1 - - + +
1023C PRO* 4.2 17.3 - - + -
1026C PHE* 5.9 2.5 - - + -
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Residues in contact with VAL 946 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
897C ILE* 3.5 35.4 - - + +
900C SER* 4.4 7.9 - - - +
901C VAL* 4.2 16.6 - - + -
942C ALA 2.7 23.1 + - - +
943C ILE* 4.6 0.9 - - - +
945C ILE* 1.3 70.6 - - + +
947C GLU* 1.3 67.3 + - - +
949C ALA* 4.0 4.2 - - - +
950C LYS* 3.2 20.8 + - - +
1022C VAL* 3.9 19.3 - - + -
1026C PHE* 3.7 38.1 - - + -
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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
----------------------------------------------------------
437C GLN 5.5 3.0 - - - +
438C ILE* 6.4 0.2 - - - -
440C GLY* 4.2 7.1 + - - -
441C ALA* 3.8 28.9 - - + +
892C TYR* 2.5 43.9 - - + +
897C ILE* 5.5 2.8 - - - +
943C ILE* 2.8 34.5 + - + +
944C LEU 4.7 0.9 - - - +
946C VAL* 1.3 74.0 - - - +
948C PHE* 1.3 66.2 + - + +
950C LYS* 4.0 11.2 + - - +
951C ASP* 3.1 56.1 + - - +
971C ARG* 4.7 3.1 - - - +
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Residues in contact with PHE 948 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415C ASN* 5.7 0.2 - - - -
418C ARG* 4.3 17.7 - - - -
437C GLN* 4.6 24.9 - - + -
944C LEU 3.8 6.9 + - - +
945C ILE 3.4 1.6 + - - -
946C VAL 3.4 0.2 - - - -
947C GLU* 1.3 82.4 - - + +
949C ALA* 1.3 64.9 + - - +
951C ASP* 3.3 12.3 + - + +
952C LEU* 2.9 41.8 + - + +
967C ALA* 3.8 28.5 - - + -
970C MET* 3.9 34.5 - - + -
971C ARG* 3.4 44.2 - - + +
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Residues in contact with ALA 949 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
945C ILE* 3.1 20.0 + - + +
946C VAL* 4.0 2.0 - - - +
947C GLU 3.3 0.4 - - - -
948C PHE* 1.3 74.8 - - - +
950C LYS* 1.3 64.2 + - - +
952C LEU* 3.1 12.7 + - - +
953C MET* 3.1 16.6 + - - +
963C ALA* 3.8 6.1 - - + +
964C THR* 4.3 12.3 - - - +
967C ALA* 3.8 14.5 - - + +
1026C PHE* 3.2 33.9 - - + -
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Residues in contact with LYS 950 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
892C TYR* 4.1 35.6 + - - +
897C ILE* 3.5 26.9 - - + -
946C VAL 3.2 14.8 + - - +
947C GLU* 4.5 9.9 + - - +
949C ALA* 1.3 78.3 - - - +
951C ASP* 1.3 80.7 + - - +
953C MET* 3.2 10.2 + - - +
954C ASP* 3.1 40.8 + - - +
1026C PHE* 3.8 16.5 - - + -
1030C ARG* 6.1 1.8 - - - +
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Residues in contact with ASP 951 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437C GLN 4.2 13.9 - - - +
947C GLU* 3.1 39.8 + - - +
948C PHE* 3.5 15.4 - - + +
950C LYS* 1.3 93.0 + - - +
952C LEU* 1.3 58.5 + - + +
954C ASP* 4.6 3.6 - - - +
955C LYS* 2.9 67.9 + - + +
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Residues in contact with LEU 952 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
948C PHE* 2.9 46.6 + - + +
949C ALA 3.1 7.6 + - - +
951C ASP* 1.3 75.0 - - + +
953C MET* 1.3 58.1 + - - +
955C LYS* 6.0 0.9 - - + -
956C GLU* 3.2 59.9 + - + +
957C GLY 3.4 5.2 + - - -
958C LYS* 3.4 11.8 + - + +
963C ALA* 3.7 20.9 - - + +
966C ASP* 3.9 30.7 - - + +
967C ALA 4.4 5.4 - - - +
970C MET* 4.4 5.4 - - + -
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Residues in contact with MET 953 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
949C ALA 3.1 11.6 + - - +
950C LYS* 3.2 9.4 + - - +
952C LEU* 1.3 78.4 - - - +
954C ASP* 1.3 63.8 + - - +
957C GLY* 3.1 23.6 - - - -
958C LYS 3.6 21.2 - - - +
959C GLY* 4.5 0.9 - - - +
960C LEU* 4.0 40.8 - - + +
963C ALA* 3.9 10.8 - - + -
1026C PHE* 4.2 15.3 - - - -
1030C ARG* 3.3 29.8 - - - +
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Residues in contact with ASP 954 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950C LYS* 3.1 37.1 + - - +
951C ASP* 4.1 4.5 - - - +
953C MET* 1.3 84.3 - - - +
955C LYS* 1.3 66.8 + - + +
957C GLY* 4.2 2.6 + - - -
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Residues in contact with LYS 955 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
436C GLY 4.7 12.1 + - - -
437C GLN* 5.8 1.6 + - - +
951C ASP* 2.9 52.1 + - + +
952C LEU* 6.0 0.7 - - + -
954C ASP* 1.3 80.6 - - + +
956C GLU* 1.3 67.8 + - + +
957C GLY 3.5 0.7 - - - -
1112C D10 6.1 3.4 - - - +
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Residues in contact with GLU 956 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437C GLN* 5.9 1.0 + - - -
952C LEU* 3.2 40.6 + - + +
955C LYS* 1.3 84.7 - - + +
957C GLY* 1.3 63.9 + - - +
958C LYS* 3.0 36.8 + - + +
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il