Contacts of the helix formed by residues 924 - 956 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562B SER* 3.4 13.2 - - - +
563B PHE 3.4 15.7 - - - +
564B LEU 4.6 0.4 - - - +
565B PRO* 3.4 27.4 - - + +
922B THR* 3.1 22.9 + - - +
923B ASN* 1.3 75.2 - - - +
925B VAL* 1.3 64.4 + - - +
926B TYR* 3.0 8.2 + - - +
927B PHE* 2.9 22.9 + - - +
928B GLN* 2.9 25.7 + - - +
1002B ALA* 3.7 12.3 - - - +
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Residues in contact with VAL 925 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463B THR* 5.8 2.9 - - + -
466B ILE* 4.2 18.4 - - + -
467B TYR* 4.0 29.4 - - + +
470B PHE* 4.2 21.8 - - + -
562B SER 4.8 1.6 - - - +
563B PHE* 3.2 29.4 + - + +
564B LEU* 4.0 22.9 - - + -
924B ASP* 1.3 76.6 - - - +
926B TYR* 1.3 67.4 + - + +
928B GLN* 3.2 10.6 + - - +
929B VAL* 2.9 28.1 + - - +
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Residues in contact with TYR 926 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B TYR* 4.6 4.5 + - - -
392B THR* 3.5 24.4 - - - +
393B LEU* 3.7 7.3 - - + +
396B PHE* 3.5 18.6 - + + -
400B LEU* 4.3 5.5 - - + +
470B PHE* 3.7 30.1 - + - -
564B LEU* 3.3 29.1 - - + +
565B PRO* 3.7 27.1 - - + -
924B ASP* 3.0 1.6 + - - -
925B VAL* 1.3 77.9 - - + +
927B PHE* 1.3 62.2 + - - +
929B VAL* 3.9 4.5 - - - +
930B GLY* 3.0 21.0 + - - -
999B ALA* 3.6 23.6 - - + +
1002B ALA* 3.6 24.3 - - + +
1003B VAL* 3.9 23.2 - - + -
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Residues in contact with PHE 927 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
559B LEU* 4.3 6.1 - - + -
912B ALA* 3.9 19.3 - - + -
913B LEU* 3.9 25.8 - - + -
916B ALA* 3.9 26.5 - - + -
921B LEU* 6.4 0.2 - - + -
922B THR 3.8 11.9 - - - +
923B ASN* 3.5 40.4 - - + -
924B ASP* 2.9 18.4 + - - +
926B TYR* 1.3 78.3 - - - +
928B GLN* 1.3 51.5 + - - +
930B GLY* 3.3 3.1 + - - -
931B LEU* 2.8 61.8 + - + +
1002B ALA* 4.0 14.1 + - + +
1006B GLY* 4.4 14.5 - - - -
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Residues in contact with GLN 928 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467B TYR* 2.9 29.0 + - + -
561B SER* 5.8 1.0 - - - -
562B SER 5.2 1.8 + - - -
923B ASN* 2.9 38.1 + - - +
924B ASP 2.9 19.0 + - - +
925B VAL* 3.8 3.7 - - - +
927B PHE* 1.3 74.4 - - + +
929B VAL* 1.3 67.5 + - + +
931B LEU* 3.6 16.7 + - + +
932B LEU* 3.6 19.6 - - - +
1111B D10 3.4 41.9 - - + +
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Residues in contact with VAL 929 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400B LEU* 3.3 24.5 - - + -
456B MET* 4.1 21.5 - - + -
467B TYR* 4.7 8.3 - - + -
470B PHE* 4.0 33.7 - - + -
474B ILE* 3.9 25.1 - - + -
925B VAL 2.9 19.3 + - - +
926B TYR* 4.1 1.8 - - - +
928B GLN* 1.3 75.7 - - - +
930B GLY* 1.4 65.0 + - - +
932B LEU* 3.1 16.9 + - + +
933B THR* 3.2 13.2 + - + +
1111B D10 6.1 0.2 - - + -
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Residues in contact with GLY 930 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400B LEU* 3.9 7.9 - - - +
926B TYR 3.0 14.7 + - - -
927B PHE* 3.6 4.0 - - - -
929B VAL* 1.4 72.9 - - - +
931B LEU* 1.3 55.6 + - - +
932B LEU 2.9 10.7 + - - -
933B THR* 3.0 21.3 + - - -
934B THR* 3.1 17.0 + - - -
1003B VAL* 5.3 1.3 - - - -
1006B GLY 5.7 1.8 - - - -
1007B VAL* 3.9 20.8 - - - +
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Residues in contact with LEU 931 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556B PHE* 4.4 15.5 - - + -
908B GLY 5.5 0.2 - - - -
909B VAL* 4.2 26.6 - - + +
912B ALA* 3.6 31.0 - - + -
913B LEU* 5.6 0.2 - - + -
923B ASN* 5.6 0.7 - - - +
927B PHE* 2.8 49.9 + - + +
928B GLN* 3.7 13.2 - - + +
929B VAL 3.2 0.4 - - - -
930B GLY* 1.3 72.1 - - - +
932B LEU* 1.3 55.9 + - - +
934B THR* 4.2 6.4 - - - -
935B ILE* 3.2 30.0 + - - +
1111B D10 4.1 24.2 - - + -
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Residues in contact with LEU 932 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452B VAL* 3.5 33.5 - - + +
453B PHE* 3.4 24.9 - - + -
456B MET* 3.7 35.2 - - + -
928B GLN 3.6 14.6 - - - +
929B VAL 3.3 10.1 - - - +
930B GLY 2.9 0.4 - - - -
931B LEU* 1.3 78.5 - - - +
933B THR* 1.3 61.1 + - - +
934B THR 3.3 0.9 - - - -
935B ILE* 3.8 12.2 - - + +
936B GLY* 3.1 18.4 + - - -
1111B D10 4.1 30.1 - - + -
1116B D10 4.4 16.2 - - + -
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Residues in contact with THR 933 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400B LEU* 3.4 37.9 + - + +
404B LEU* 4.1 12.1 - - + +
453B PHE* 4.1 20.9 - - + -
474B ILE* 4.1 9.4 - - + -
929B VAL 3.3 12.1 - - - +
930B GLY* 3.0 19.1 + - - -
932B LEU* 1.3 76.1 - - - +
934B THR* 1.3 58.9 + - - -
936B GLY* 3.6 1.2 - - - +
937B LEU* 2.9 30.7 + - - +
982B PHE* 5.4 5.7 - - - -
1007B VAL* 4.0 10.9 - - - +
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Residues in contact with THR 934 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
908B GLY* 4.0 20.6 - - - +
909B VAL* 6.2 0.2 - - + -
912B ALA* 5.8 1.1 - - + -
930B GLY 3.1 16.2 + - - -
931B LEU* 4.4 7.9 - - + +
933B THR* 1.3 76.4 + - - +
935B ILE* 1.3 66.5 + - + +
937B LEU* 3.2 2.6 + - - +
938B SER* 3.0 22.9 + - - -
982B PHE* 5.7 1.0 - - - -
1006B GLY 4.6 1.1 + - - -
1007B VAL* 4.0 24.9 + - - +
1010B GLY* 3.8 31.2 - - - +
1011B MET* 4.3 16.1 - - - +
1014B ALA* 4.5 2.7 - - + -
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Residues in contact with ILE 935 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
452B VAL* 5.0 9.0 - - + -
904B VAL* 5.4 0.3 - - - +
905B VAL* 4.0 28.7 - - + +
908B GLY* 6.0 0.4 - - - -
909B VAL* 3.8 27.8 - - + +
931B LEU 3.2 22.9 + - - +
932B LEU* 3.9 11.4 - - + +
933B THR 3.3 0.4 - - - -
934B THR* 1.3 80.8 - - + +
936B GLY* 1.3 66.1 + - - +
938B SER* 3.6 7.0 + - - -
939B ALA* 3.0 24.6 + - + +
1111B D10 4.0 20.0 - - + -
1116B D10 3.8 33.2 - - + -
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Residues in contact with GLY 936 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
404B LEU* 4.6 4.7 - - - -
449B LEU* 3.8 27.8 - - - +
452B VAL* 5.9 2.7 - - - -
453B PHE* 5.1 3.1 - - - -
932B LEU 3.1 16.9 + - - -
933B THR* 3.6 4.3 - - - -
934B THR 3.2 0.8 - - - -
935B ILE* 1.3 79.8 - - - +
937B LEU* 1.3 57.2 + - - +
939B ALA* 3.5 4.0 - - - +
940B LYS* 2.9 27.6 + - - +
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Residues in contact with LEU 937 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403B GLY* 4.1 22.0 - - - +
404B LEU* 3.9 16.7 - - + +
407B ASP* 3.7 31.6 - - + +
933B THR 2.9 17.6 + - - +
934B THR 3.2 3.6 + - - +
936B GLY* 1.3 74.8 - - - +
938B SER* 1.3 64.3 + - - +
940B LYS* 3.0 12.0 + - + +
941B ASN* 2.9 32.4 + - - +
978B THR* 4.1 17.0 - - + -
982B PHE* 4.5 6.3 - - + -
1011B MET* 3.9 31.0 - - + -
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Residues in contact with SER 938 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
904B VAL* 3.9 32.1 + - - +
905B VAL* 5.0 1.4 + - - -
908B GLY* 4.9 3.1 + - - -
934B THR 3.0 11.5 + - - -
935B ILE* 3.6 10.7 + - - -
937B LEU* 1.3 76.3 - - - +
939B ALA* 1.3 62.8 + - - +
941B ASN* 3.3 14.3 + - - +
942B ALA* 3.1 22.9 + - - +
1011B MET* 5.9 1.0 - - - -
1014B ALA* 3.7 33.4 - - - +
1018B ALA* 5.1 2.0 - - - +
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Residues in contact with ALA 939 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
448B VAL* 5.2 9.9 - - + -
449B LEU* 5.4 1.6 - - + -
901B VAL* 4.0 6.9 - - + +
904B VAL* 4.1 15.3 - - + -
905B VAL* 6.2 0.9 - - + -
935B ILE* 3.0 23.9 + - + +
936B GLY* 3.5 6.5 - - - +
938B SER* 1.3 80.0 + - - +
940B LYS* 1.3 56.9 + - - +
942B ALA* 3.4 3.0 + - - +
943B ILE* 2.9 44.6 + - + +
1116B D10 5.3 9.0 - - + -
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Residues in contact with LYS 940 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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404B LEU* 3.2 30.9 + - + +
407B ASP* 3.3 27.8 + - - +
408B ASP* 2.8 34.1 + - - +
411B VAL* 5.8 0.7 - - - -
442B LEU* 4.9 2.2 - - - -
445B ILE* 3.7 43.7 - - + +
449B LEU* 4.7 9.7 - - + +
478B MET* 6.0 0.4 - - - +
936B GLY 2.9 11.9 + - - +
937B LEU* 3.0 22.2 - - + +
939B ALA* 1.3 73.1 - - - +
941B ASN* 1.3 62.6 + - - +
943B ILE* 3.1 11.9 + - - +
944B LEU* 3.1 28.4 + - + +
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Residues in contact with ASN 941 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407B ASP* 4.0 11.8 - - - +
937B LEU* 2.9 33.2 + - - +
938B SER* 3.3 15.0 + - - +
940B LYS* 1.3 75.9 - - - +
942B ALA* 1.3 63.9 + - - +
944B LEU* 3.3 8.9 + - - +
945B ILE* 3.1 27.2 + - + +
971B ARG* 5.0 0.3 - - - +
975B ILE* 3.8 44.1 + - + +
978B THR* 5.5 1.9 - - - +
979B SER* 5.3 4.8 + - - -
1011B MET* 5.7 4.6 - - - +
1014B ALA* 5.5 4.2 + - - +
1015B THR* 5.5 4.6 + - - +
1018B ALA* 5.8 7.4 - - + +
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Residues in contact with ALA 942 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
901B VAL* 4.2 19.3 - - + -
904B VAL* 4.5 9.4 - - + -
938B SER 3.1 15.9 + - - +
939B ALA 3.7 4.5 - - - +
941B ASN* 1.3 74.2 - - - +
943B ILE* 1.3 66.9 + - - +
945B ILE* 3.2 10.5 + - - +
946B VAL* 2.9 30.9 + - + +
1018B ALA* 6.3 0.2 - - - +
1022B VAL* 4.1 25.6 - - + -
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Residues in contact with ILE 943 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441B ALA* 4.4 9.0 - - + -
445B ILE* 4.1 29.8 - - + -
448B VAL* 4.6 15.9 - - + -
449B LEU* 6.4 0.9 - - + -
888B LEU* 4.1 18.6 - - + -
891B LEU* 3.5 23.1 - - + -
892B TYR* 3.0 22.0 + - + +
901B VAL* 3.7 17.5 - - + -
939B ALA* 2.9 35.8 + - + +
940B LYS* 3.1 5.8 + - - +
942B ALA* 1.3 76.5 - - - +
944B LEU* 1.3 57.7 + - - +
947B GLU* 2.9 27.4 + - - +
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Residues in contact with LEU 944 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
407B ASP* 5.1 0.9 - - - +
411B VAL* 4.1 32.3 - - + -
438B ILE* 4.1 26.0 - - + +
441B ALA* 3.7 23.8 - - + -
442B LEU* 5.3 2.9 - - + -
445B ILE* 4.3 16.2 - - + -
940B LYS* 3.1 21.8 + - + +
941B ASN* 3.7 9.6 - - - +
942B ALA 3.1 0.2 - - - -
943B ILE* 1.3 74.4 - - - +
945B ILE* 1.3 59.9 + - - +
947B GLU* 4.3 2.0 - - + -
948B PHE* 2.7 39.5 + - + +
971B ARG* 4.1 21.8 - - + +
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Residues in contact with ILE 945 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527B TYR* 5.9 0.2 - - - +
941B ASN* 3.1 18.2 + - + +
942B ALA* 3.2 5.8 + - - +
944B LEU* 1.3 74.2 - - - +
946B VAL* 1.3 62.1 + - + +
948B PHE* 3.2 4.1 + - - +
949B ALA* 2.8 29.9 + - + +
964B THR* 5.6 2.0 - - + +
967B ALA* 3.6 9.4 - - + +
968B VAL* 4.2 26.5 - - + -
971B ARG* 3.6 26.6 - - + +
975B ILE* 4.0 18.6 - - + -
1018B ALA* 5.7 0.9 - - + -
1019B ILE* 5.2 8.1 - - + -
1022B VAL* 3.8 32.3 - - + -
1023B PRO* 5.3 2.7 - - + -
1026B PHE* 6.3 1.6 - - + -
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Residues in contact with VAL 946 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
892B TYR* 3.7 16.8 - - + +
897B ILE* 3.8 19.7 - - + -
900B SER* 3.6 20.2 - - - +
901B VAL* 4.0 7.9 - - + -
942B ALA* 2.9 17.9 + - - +
945B ILE* 1.3 78.4 - - + +
947B GLU* 1.3 63.8 + - - +
949B ALA* 3.9 5.1 - - - +
950B LYS* 3.0 23.1 + - + +
1022B VAL* 4.7 14.6 - - + -
1026B PHE* 3.7 34.8 - - + -
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Residues in contact with GLU 947 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437B GLN 4.2 17.3 - - - +
440B GLY* 6.2 0.4 - - - -
441B ALA* 4.1 23.1 - - + +
891B LEU* 4.2 17.5 - - - +
892B TYR* 3.8 25.3 - - + -
943B ILE* 2.9 21.2 + - + +
944B LEU* 3.8 5.6 - - + +
946B VAL* 1.3 76.9 - - - +
948B PHE* 1.3 68.2 + - + +
950B LYS* 3.9 3.7 - - - +
951B ASP* 3.0 40.7 + - + +
955B LYS* 5.5 2.1 + - - -
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Residues in contact with PHE 948 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
415B ASN* 3.6 10.5 - - - -
418B ARG* 3.6 18.8 - - - -
437B GLN* 4.0 17.7 - - + -
438B ILE* 3.6 27.1 - - + -
944B LEU* 2.7 28.5 + - + +
945B ILE* 3.6 4.5 - - - +
947B GLU* 1.3 79.6 - - + +
949B ALA* 1.3 63.3 + - - +
951B ASP* 3.4 7.3 + - + +
952B LEU* 3.1 26.7 + - - +
967B ALA* 3.8 12.3 - - + -
970B MET* 4.1 25.4 - - + -
971B ARG* 3.4 44.4 - - + -
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Residues in contact with ALA 949 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
945B ILE* 2.8 22.2 + - + +
946B VAL* 3.9 3.6 - - - +
948B PHE* 1.3 72.4 - - - +
950B LYS* 1.3 64.1 + - - +
952B LEU* 3.1 7.1 + - - +
953B MET* 3.1 19.0 + - - +
963B ALA* 3.5 18.3 - - + +
964B THR* 4.3 6.3 - - - -
967B ALA* 3.4 16.5 - - + +
1026B PHE* 3.7 28.7 - - + -
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Residues in contact with LYS 950 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
892B TYR* 3.4 36.1 + - + +
893B GLU* 5.2 4.0 + - - +
894B SER* 5.1 0.4 - - - -
897B ILE* 3.4 33.2 - - + -
946B VAL* 3.0 19.1 + - + +
947B GLU* 3.9 6.3 - - - +
949B ALA* 1.3 78.5 - - - +
951B ASP* 1.3 55.8 + - - +
953B MET* 3.1 8.6 + - + +
954B ASP* 2.6 62.8 + - - +
1026B PHE* 4.4 13.8 - - + -
1030B ARG* 6.0 3.4 - - - +
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Residues in contact with ASP 951 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437B GLN* 5.2 17.5 - - - +
947B GLU* 3.0 31.9 + - - +
948B PHE* 3.8 8.4 - - + +
950B LYS* 1.3 76.2 - - - +
952B LEU* 1.3 64.3 + - - +
955B LYS* 2.6 74.4 + - + +
956B GLU* 6.1 0.7 - - - +
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Residues in contact with LEU 952 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
948B PHE 3.1 13.5 + - - +
949B ALA 3.1 9.7 + - - +
951B ASP* 1.3 82.1 - - - +
953B MET* 1.3 57.8 + - - +
956B GLU* 3.0 60.2 + - - +
957B GLY 3.4 5.2 + - - -
958B LYS* 3.5 19.1 + - + +
963B ALA* 3.8 18.4 - - + +
966B ASP* 3.6 25.8 - - + +
967B ALA 4.3 0.9 - - - +
970B MET* 3.6 31.2 - - + -
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Residues in contact with MET 953 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
949B ALA 3.1 9.4 + - - +
950B LYS* 3.6 8.5 - - + +
952B LEU* 1.3 78.4 - - - +
954B ASP* 1.3 65.7 + - - +
957B GLY* 3.3 19.1 + - - -
958B LYS 3.7 19.1 + - - +
959B GLY 4.0 0.4 - - - +
960B LEU* 3.6 48.5 - - + +
963B ALA* 3.3 22.9 - - + -
1026B PHE* 4.2 17.0 - - - -
1030B ARG* 4.3 19.3 - - - +
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Residues in contact with ASP 954 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950B LYS* 2.6 57.9 + - - +
953B MET* 1.3 77.7 - - - +
955B LYS* 1.3 85.5 + - - +
957B GLY* 4.4 1.9 + - - -
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Residues in contact with LYS 955 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
947B GLU* 5.5 2.2 + - - -
951B ASP* 2.6 59.7 + - - +
954B ASP* 1.3 104.1 + - - +
956B GLU* 1.3 66.7 + - + +
957B GLY 3.5 0.4 - - - -
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Residues in contact with GLU 956 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
951B ASP* 6.1 0.9 - - - +
952B LEU* 3.0 37.4 + - + +
955B LYS* 1.3 85.7 - - + +
957B GLY* 1.3 63.3 + - - +
958B LYS* 2.9 29.4 + - + +
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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