Contacts of the helix formed by residues 979 - 1007 (chain B) in PDB entry 1OW8
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 THR 979 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
975B LEU* 4.0 7.1 - - - +
976B PRO* 3.0 32.0 + - + +
977B ALA 3.0 0.8 - - - -
978B SER* 1.3 87.1 - - - +
980B HIS* 1.3 67.9 + - - +
981B ARG 3.0 5.7 + - - -
982B GLU* 3.2 18.9 + - - +
983B ILE* 3.4 26.3 + - - +
1037B VAL* 5.9 2.7 - - - -
1041B ALA* 4.0 20.4 - - + +
1044B LYS* 4.7 7.2 - - + -
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Residues in contact with HIS 980 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
972B ILE* 3.1 43.1 + - + +
973B PRO* 4.6 6.1 - - + -
975B LEU* 2.7 25.8 + - + -
976B PRO 2.8 22.6 + - - -
977B ALA* 3.1 24.5 + - + +
979B THR* 1.3 81.5 + - - +
981B ARG* 1.3 57.3 + - - +
983B ILE* 4.0 6.9 - - + +
984B GLU* 2.8 44.7 + - - +
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Residues in contact with ARG 981 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
977B ALA 4.7 1.2 + - - -
978B SER 5.0 4.0 + - - +
979B THR 3.0 2.0 + - - -
980B HIS* 1.3 75.9 - - - +
982B GLU* 1.3 67.9 + - - +
983B ILE 3.0 1.8 - - - -
984B GLU* 2.9 25.9 + - - +
985B MET* 2.9 49.3 + - + +
988B LYS* 5.2 4.6 - - - +
1009C MET 5.7 1.0 + - - -
1010C THR* 3.7 18.2 + - - +
1011C SER* 5.7 2.4 + - - +
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Residues in contact with GLU 982 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
978B SER 5.7 0.2 + - - -
979B THR* 3.2 11.8 + - - +
981B ARG* 1.3 79.4 - - - +
983B ILE* 1.3 62.7 + - - +
985B MET* 3.6 5.9 - - - +
986B ALA* 3.0 24.8 + - - +
1037B VAL* 3.4 38.0 - - + +
1011C SER* 5.8 4.7 - - - +
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Residues in contact with ILE 983 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
968B VAL* 3.5 30.5 - - + -
972B ILE* 4.0 16.4 - - + -
975B LEU* 3.7 29.8 - - + -
979B THR* 3.4 29.6 + - - +
980B HIS* 4.0 6.1 - - - +
981B ARG 3.0 0.8 - - - -
982B GLU* 1.3 78.4 - - - +
984B GLU* 1.3 63.4 + - - +
986B ALA* 3.6 6.1 + - - +
987B GLN* 3.0 22.0 + - - +
1034B LEU* 4.2 10.0 - - + +
1037B VAL* 4.0 19.5 - - + -
1038B ILE* 4.4 10.8 - - + -
1041B ALA* 4.8 4.3 - - + -
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Residues in contact with GLU 984 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
972B ILE* 4.1 17.6 - - + +
980B HIS* 2.8 37.3 + - - +
981B ARG* 2.9 22.5 + - - +
983B ILE* 1.3 81.5 - - - +
985B MET* 1.3 62.0 + - - +
987B GLN* 3.5 18.5 - - - +
988B LYS* 3.3 31.3 + - - +
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Residues in contact with MET 985 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
981B ARG* 2.9 55.2 + - + +
982B GLU* 3.6 6.1 - - - +
984B GLU* 1.3 75.2 - - - +
986B ALA* 1.3 66.3 + - - +
987B GLN 3.0 1.1 - - - -
988B LYS* 2.8 55.5 + - + +
989B LEU* 2.9 13.3 + - - +
1007C TYR* 4.2 11.7 - - + -
1010C THR* 3.7 11.9 - - + -
1011C SER* 3.2 26.5 - - - +
1012C LEU* 3.7 25.2 - - + +
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Residues in contact with ALA 986 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
982B GLU 3.0 17.9 + - - +
983B ILE* 3.8 0.9 - - - +
985B MET* 1.3 75.5 - - - +
987B GLN* 1.3 62.7 + - - +
989B LEU* 3.4 14.9 + - + +
990B LEU* 3.1 26.2 + - - +
1030B ASP 5.8 1.3 - - - +
1034B LEU* 3.6 34.1 - - + -
1037B VAL* 5.9 4.7 - - + -
1012C LEU* 5.2 0.6 - - - +
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Residues in contact with GLN 987 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
965B LEU* 3.4 41.1 + - + +
968B VAL* 3.7 24.7 - - + +
969B ASP* 2.9 27.2 + - - +
972B ILE* 3.8 13.7 - - - +
983B ILE* 3.0 21.6 + - + +
984B GLU* 3.5 18.7 - - - +
985B MET 3.0 1.6 - - - -
986B ALA* 1.3 76.9 - - - +
988B LYS* 1.3 62.9 + - + +
990B LEU* 3.2 15.4 + - - +
991B ASN* 3.2 20.7 + - - +
1034B LEU* 4.7 5.6 - - + -
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Residues in contact with LYS 988 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
981B ARG* 5.2 5.6 - - - +
984B GLU* 3.3 16.1 + - - +
985B MET* 2.8 37.9 + - + +
987B GLN* 1.3 76.4 - - + +
989B LEU* 1.3 59.7 + - - +
991B ASN* 2.9 25.5 + - - +
992B SER* 3.1 10.2 + - - -
1007C TYR* 3.5 29.0 + - + +
1012C LEU* 4.1 9.0 - - + -
1016C TYR* 3.9 5.7 + - - -
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Residues in contact with LEU 989 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
985B MET 2.9 9.3 + - - +
986B ALA* 3.5 15.9 - - + +
988B LYS* 1.3 77.1 - - - +
990B LEU* 1.3 57.7 + - - +
992B SER* 3.2 9.2 + - - +
993B ASP* 2.9 38.2 + - - +
1030B ASP* 3.4 35.2 - - + +
1012C LEU* 4.1 13.1 - - + +
1015C GLU* 4.0 22.2 - - + +
1016C TYR* 3.9 13.8 + - + +
1019C GLN* 4.0 20.0 - - - +
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Residues in contact with LEU 990 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
961B LEU* 3.5 41.9 - - + +
964B LEU* 4.0 10.8 - - + -
965B LEU* 4.1 8.7 - - + -
986B ALA 3.1 18.0 + - - +
987B GLN 3.2 5.5 + - - +
989B LEU* 1.3 76.9 - - - +
991B ASN* 1.3 58.8 + - - +
993B ASP* 3.6 5.4 - - - +
994B LEU 2.9 21.5 + - - -
1027B LEU* 3.8 13.8 - - + +
1030B ASP* 3.5 20.9 - - + +
1031B ALA* 3.4 30.5 - - + +
1034B LEU* 3.8 28.0 - - + -
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Residues in contact with ASN 991 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
961B LEU* 4.5 4.3 - - - +
965B LEU* 3.6 28.0 - - - +
987B GLN* 3.2 23.8 + - - +
988B LYS* 2.9 13.4 + - - +
990B LEU* 1.3 77.5 - - - +
992B SER* 1.3 59.5 + - - +
994B LEU* 3.3 9.6 + - - +
995B GLY* 2.9 22.5 + - - -
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Residues in contact with SER 992 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
988B LYS 3.1 5.6 + - - -
989B LEU* 3.2 8.6 + - - +
991B ASN* 1.3 74.1 - - - +
993B ASP* 1.3 73.2 + - - +
995B GLY* 2.8 12.6 + - - +
996B GLU* 2.9 16.5 + - - +
1000C LYS* 4.9 3.1 + - - -
1003C LEU* 4.1 16.1 - - - +
1016C TYR* 3.1 42.8 + - - -
1019C GLN* 4.5 4.0 + - - -
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Residues in contact with ASP 993 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
989B LEU* 2.9 22.5 + - - +
990B LEU* 3.6 9.0 - - - +
992B SER* 1.3 86.4 + - - +
994B LEU* 1.3 63.2 + - - +
996B GLU* 3.4 9.8 + - - +
997B LEU* 3.1 20.6 + - - +
1023B ALA* 4.6 6.8 - - - +
1026B ALA* 3.5 14.0 - - - +
1027B LEU* 3.7 26.7 - - + +
1030B ASP* 2.5 38.8 - - - +
1019C GLN* 4.7 8.1 + - - +
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Residues in contact with LEU 994 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
954B VAL* 4.7 5.2 - - + -
958B GLY* 3.9 32.8 - - - +
961B LEU* 3.8 19.3 - - + -
962B ARG* 4.7 13.5 - - + +
990B LEU 2.9 18.9 + - - +
991B ASN* 3.7 8.7 - - - +
992B SER 3.2 0.4 - - - -
993B ASP* 1.3 76.3 - - - +
995B GLY* 1.3 62.1 + - - +
997B LEU* 3.2 22.4 + - + -
998B ILE* 3.1 41.0 + - + +
1027B LEU* 4.1 13.0 - - + +
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Residues in contact with GLY 995 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
991B ASN 2.9 11.2 + - - -
992B SER* 2.8 11.1 + - - -
994B LEU* 1.3 76.0 - - - +
996B GLU* 1.3 58.7 + - - -
998B ILE* 3.2 9.1 + - - +
999B ASN* 3.1 34.7 + - - +
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Residues in contact with GLU 996 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
992B SER 2.9 14.1 + - - +
993B ASP* 4.0 8.5 - - - +
995B GLY* 1.3 68.6 - - - -
997B LEU* 1.3 66.2 + - - +
999B ASN* 3.5 11.7 - - - +
1000B LYS* 3.1 44.2 + - + +
1019B GLN 5.3 0.9 - - - +
1022B THR* 4.6 10.4 - - - +
1023B ALA* 3.9 23.6 - - + +
1026B ALA* 5.8 3.2 - - - +
996C GLU* 4.9 12.6 - - + +
1000C LYS* 2.5 46.5 + - - +
1019C GLN* 3.8 6.9 - - - +
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Residues in contact with LEU 997 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
938B MET* 4.0 21.3 - - + -
954B VAL* 3.8 26.7 - - + -
957B VAL* 4.0 24.0 - - + -
993B ASP 3.1 13.8 + - - +
994B LEU* 3.4 15.5 - - + +
995B GLY 3.1 0.4 - - - -
996B GLU* 1.3 79.2 - - - +
998B ILE* 1.3 58.6 + - - +
1000B LYS* 4.0 1.1 - - - -
1001B MET* 3.1 22.9 + - - +
1020B MET* 3.6 37.9 - - + +
1023B ALA* 3.7 13.0 - - + +
1024B ALA* 4.3 7.9 - - + -
1027B LEU* 4.5 4.9 - - + -
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Residues in contact with ILE 998 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
954B VAL* 4.7 9.0 - - + -
962B ARG* 5.7 5.4 - - - +
994B LEU* 3.1 41.1 + - + +
995B GLY* 3.2 8.9 + - - +
996B GLU 3.2 0.2 - - - -
997B LEU* 1.3 75.9 - - - +
999B ASN* 1.3 68.3 + - - +
1001B MET* 3.2 24.5 + - + +
1002B LYS* 3.0 42.6 + - + +
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Residues in contact with ASN 999 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
995B GLY 3.1 22.4 + - - +
996B GLU* 3.5 17.0 - - - +
998B ILE* 1.3 79.5 - - - +
1000B LYS* 1.3 75.4 + - - +
1002B LYS* 3.1 11.1 + - - +
1003B LEU* 3.1 26.1 + - + +
999C ASN* 3.0 33.4 - - - +
1000C LYS* 5.9 0.6 - - - +
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Residues in contact with LYS1000 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
996B GLU* 3.1 28.5 + - + +
997B LEU* 4.1 2.0 - - - +
999B ASN* 1.3 95.0 - - - +
1001B MET* 1.3 65.0 + - - +
1002B LYS 2.9 2.0 + - - -
1003B LEU* 3.0 22.0 + - + +
1004B ALA* 2.9 22.9 + - - +
1016B TYR* 4.3 6.5 - - + +
1019B GLN* 3.0 44.4 - - + +
1020B MET* 4.0 23.7 - - + +
992C SER* 5.4 3.4 + - - -
996C GLU* 3.0 44.2 + - - +
999C ASN* 5.5 0.8 - - - +
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Residues in contact with MET1001 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950B TYR* 4.0 9.8 - - + -
951B VAL* 3.9 37.2 - - + +
954B VAL* 3.7 35.9 - - + -
997B LEU 3.1 15.1 + - - +
998B ILE* 3.4 34.3 - - + +
1000B LYS* 1.3 75.5 - - - +
1002B LYS* 1.3 66.0 + - + +
1004B ALA* 3.4 4.2 + - - +
1005B GLN* 3.0 43.3 + - - +
1020B MET* 3.5 15.9 - - - +
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Residues in contact with LYS1002 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
998B ILE* 3.0 31.2 + - + +
999B ASN* 3.2 13.5 - - - +
1000B LYS 3.0 0.4 - - - -
1001B MET* 1.3 81.4 - - + +
1003B LEU* 1.3 65.0 + - + +
1005B GLN* 3.4 19.7 + - - +
1006B GLN* 3.3 25.4 + - - +
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Residues in contact with LEU1003 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
999B ASN* 3.1 16.0 + - + +
1000B LYS* 3.0 24.6 + - + +
1002B LYS* 1.3 74.8 - - + +
1004B ALA* 1.3 66.7 + - - +
1005B GLN 3.1 0.3 + - - -
1006B GLN* 3.3 21.2 + - - +
1007B TYR* 3.0 27.1 + - + +
1016B TYR* 3.7 42.6 - - + +
988C LYS* 4.5 15.9 - - - +
992C SER* 4.0 15.9 - - - -
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Residues in contact with ALA1004 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
950B TYR* 3.2 20.0 - - + +
1000B LYS 2.9 11.8 + - - +
1001B MET 3.4 8.5 - - - +
1003B LEU* 1.3 79.0 - - - +
1005B GLN* 1.3 61.7 + - - +
1007B TYR 3.4 1.4 + - - -
1008B VAL 3.3 7.4 + - - -
1013B GLN* 2.6 28.4 - - - +
1016B TYR* 3.6 23.2 - - + +
1017B LYS* 4.6 3.1 - - + +
1020B MET* 4.1 13.7 - - - -
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Residues in contact with GLN1005 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
947B PRO* 4.5 14.5 - - + +
950B TYR* 3.6 9.9 - - + -
951B VAL* 3.7 33.6 - - + +
1001B MET* 3.0 29.9 + - - +
1002B LYS* 3.5 24.0 - - - +
1003B LEU 3.1 0.4 - - - -
1004B ALA* 1.3 74.7 - - - +
1006B GLN* 1.3 63.9 - - - +
1008B VAL* 3.1 26.2 + - - +
----------------------------------------------------------
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Residues in contact with GLN1006 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1002B LYS* 3.3 9.7 + - - +
1003B LEU* 3.4 22.3 - - - +
1005B GLN* 1.3 78.6 - - - +
1007B TYR* 1.3 91.6 + - + +
1008B VAL* 3.3 11.3 + - - +
1010B THR* 5.1 0.9 - - - +
988C LYS* 3.5 16.2 - - - +
----------------------------------------------------------
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Residues in contact with TYR1007 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1003B LEU* 3.0 24.8 + - + +
1004B ALA 3.6 4.0 - - - +
1005B GLN 3.2 0.2 - - - -
1006B GLN* 1.3 106.6 + - + +
1008B VAL* 1.3 65.1 + - - +
1010B THR* 3.0 37.9 + - + +
1012B LEU* 4.0 17.3 - - + -
1013B GLN* 3.4 13.5 + - - +
1016B TYR* 3.9 17.9 - + + -
981C ARG* 6.1 0.4 - - - -
985C MET* 4.3 15.0 - - + -
988C LYS* 3.0 49.8 + - + +
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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