Contacts of the helix formed by residues 1012 - 1046 (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 LEU1012 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1007B TYR* 4.0 13.5 - - + -
1010B THR* 3.1 8.0 + - - +
1011B SER* 1.3 84.4 - - - +
1013B GLN* 1.3 64.2 + - - +
1014B GLN 2.9 2.2 + - - -
1015B GLU* 3.1 16.5 + - + +
1016B TYR* 2.9 62.8 + - + +
985C MET* 3.6 44.4 - - + +
986C ALA* 5.8 0.2 - - - -
988C LYS* 4.5 6.1 - - + -
989C LEU* 4.4 15.9 - - + +
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Residues in contact with GLN1013 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
945B ALA 4.1 3.6 + - - -
946B PRO* 4.4 1.4 - - - +
947B PRO* 3.7 7.9 - - - +
950B TYR* 2.8 28.7 + - - -
1004B ALA* 2.6 34.7 - - - +
1007B TYR* 3.4 20.1 + - - +
1008B VAL* 3.7 27.3 - - + +
1009B MET 5.1 0.7 - - - +
1010B THR 3.4 9.1 + - - +
1012B LEU* 1.3 75.0 - - - +
1014B GLN* 1.3 78.1 + - + +
1016B TYR* 4.1 1.2 - - - +
1017B LYS* 3.1 42.7 + - - +
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Residues in contact with GLN1014 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
943B GLN* 3.4 45.0 + - - +
1011B SER 3.6 10.3 + - - +
1012B LEU 2.9 1.2 - - - -
1013B GLN* 1.3 91.2 - - + +
1015B GLU* 1.3 60.9 + - - +
1017B LYS* 3.2 35.7 + - - +
1018B LYS* 3.1 31.2 + - + +
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Residues in contact with GLU1015 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1011B SER 4.5 1.4 + - - +
1012B LEU* 3.1 21.8 + - + +
1014B GLN* 1.3 77.4 - - - +
1016B TYR* 1.3 63.3 + - + +
1018B LYS* 2.9 28.7 + - - +
1019B GLN* 3.0 42.6 + - - +
989C LEU* 4.0 28.7 - - + +
1030C ASP* 5.0 3.7 - - - +
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Residues in contact with TYR1016 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1000B LYS* 4.3 6.8 - - + +
1003B LEU* 3.7 42.2 - - + -
1004B ALA* 3.6 23.3 - - + +
1007B TYR* 3.9 16.4 - + + -
1012B LEU* 2.9 51.8 + - + +
1015B GLU* 1.3 78.9 - - + +
1017B LYS* 1.3 56.4 + - - +
1019B GLN* 3.3 27.3 + - - +
1020B MET* 2.9 31.9 + - - +
988C LYS* 3.9 10.0 + - - +
989C LEU* 3.9 17.5 - - + -
992C SER* 2.6 33.8 + - - -
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Residues in contact with LYS1017 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
942B ILE* 2.7 38.7 + - + +
943B GLN* 2.5 33.1 + - + +
944B PRO 3.7 0.8 - - - -
945B ALA 2.4 31.5 + - - +
950B TYR* 3.9 14.6 - - + -
1004B ALA* 4.7 5.2 - - + -
1013B GLN* 3.1 31.2 + - - +
1014B GLN* 3.2 30.7 - - - +
1015B GLU 3.1 0.2 - - - -
1016B TYR* 1.3 76.4 - - - +
1018B LYS* 1.3 66.2 + - + +
1020B MET* 3.3 11.1 + - - +
1021B LEU* 3.2 25.9 + - - +
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Residues in contact with LYS1018 (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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1014B GLN* 3.1 21.0 + - + +
1015B GLU* 2.9 19.0 + - - +
1017B LYS* 1.3 77.3 - - - +
1019B GLN* 1.3 61.5 + - + +
1021B LEU* 3.1 27.5 + - + +
1022B THR* 3.1 22.0 + - - -
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Residues in contact with GLN1019 (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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996B GLU* 5.3 0.9 - - - +
1000B LYS* 3.0 44.4 - - + +
1015B GLU* 3.0 37.5 + - - +
1016B TYR* 3.8 17.2 - - - +
1017B LYS 3.2 0.4 - - - -
1018B LYS* 1.3 74.1 - - + +
1020B MET* 1.3 62.5 + - - +
1022B THR* 3.3 10.0 + - + +
1023B ALA* 3.1 23.0 + - - +
989C LEU* 3.7 21.6 - - - +
992C SER* 5.1 1.8 + - - -
993C ASP* 4.2 9.3 + - - +
996C GLU* 3.6 7.7 - - - +
1030C ASP* 5.6 0.6 + - - -
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Residues in contact with MET1020 (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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938B MET* 4.2 9.0 - - + -
942B ILE* 3.4 29.2 - - + -
950B TYR* 4.0 17.7 - - + -
954B VAL* 3.8 28.7 - - + -
997B LEU* 3.6 15.4 - - + +
1000B LYS* 4.0 4.2 - - + +
1001B MET* 3.5 35.0 - - - +
1004B ALA* 4.1 16.8 - - - -
1016B TYR 2.9 17.7 + - - +
1017B LYS* 3.4 9.9 - - - +
1019B GLN* 1.3 75.8 - - - +
1021B LEU* 1.3 56.9 + - - +
1023B ALA* 3.2 1.8 + - - -
1024B ALA* 2.8 32.3 + - - +
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Residues in contact with LEU1021 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
938B MET* 5.0 3.8 - - - -
939B SER* 3.1 46.2 - - - +
942B ILE* 3.6 22.9 - - + -
1017B LYS 3.2 14.4 + - - +
1018B LYS* 3.1 32.3 + - + +
1020B MET* 1.3 78.9 - - - +
1022B THR* 1.3 58.8 + - - +
1024B ALA* 3.8 4.3 - - - +
1025B HIS* 2.8 31.4 + - - +
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Residues in contact with THR1022 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
996B GLU* 4.6 9.9 - - - +
1018B LYS 3.1 9.1 + - - -
1019B GLN* 3.5 13.9 - - + +
1021B LEU* 1.3 80.2 - - - +
1023B ALA* 1.3 59.6 + - - +
1025B HIS* 3.3 7.6 + - - +
1026B ALA* 2.9 27.3 + - + +
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Residues in contact with ALA1023 (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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993B ASP* 4.6 5.4 - - - +
996B GLU* 3.9 25.1 - - + +
997B LEU* 3.7 36.1 - - + +
1000B LYS* 5.1 0.2 - - + -
1019B GLN 3.1 14.0 + - - +
1020B MET* 3.6 6.7 - - - +
1022B THR* 1.3 77.3 - - - +
1024B ALA* 1.3 59.8 + - - +
1026B ALA* 3.2 7.7 + - - +
1027B LEU* 2.9 28.4 + - - +
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Residues in contact with ALA1024 (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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935B VAL* 3.4 31.5 - - + +
938B MET* 4.3 23.6 - - + -
939B SER* 6.2 1.1 - - - -
997B LEU* 4.3 11.0 - - + -
1020B MET 2.8 18.1 + - - +
1021B LEU* 3.8 7.0 - - + +
1023B ALA* 1.3 78.1 - - - +
1025B HIS* 1.3 62.7 + - - +
1027B LEU* 3.4 9.3 + - - +
1028B ALA 3.0 17.3 + - - -
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Residues in contact with HIS1025 (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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935B VAL* 4.3 4.2 - - - +
1021B LEU 2.8 18.8 + - - +
1022B THR* 3.5 6.9 + - - +
1024B ALA* 1.3 73.8 - - - +
1026B ALA* 1.3 67.9 + - - +
1028B ALA* 2.9 16.9 + - + +
1029B VAL* 3.0 38.8 + - + +
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Residues in contact with ALA1026 (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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993B ASP* 3.8 15.0 - - - +
996B GLU* 5.8 3.4 - - - +
1022B THR* 2.9 15.1 + - + +
1023B ALA* 3.2 11.6 + - - +
1025B HIS* 1.3 78.9 + - - +
1027B LEU* 1.3 63.3 + - - +
1029B VAL* 3.7 5.1 - - - +
1030B ASP* 3.0 31.8 + - - +
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Residues in contact with LEU1027 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
931B LEU* 4.4 20.9 - - + -
935B VAL* 5.1 0.7 - - + -
957B VAL* 3.7 28.3 - - + -
961B LEU* 4.2 9.6 - - + -
990B LEU* 3.9 29.2 - - + +
993B ASP* 3.7 19.5 + - + -
994B LEU* 4.1 28.9 - - + +
997B LEU* 4.5 6.7 - - + -
1023B ALA 2.9 13.1 + - - +
1024B ALA* 3.4 10.3 - - - +
1026B ALA* 1.3 76.5 - - - +
1028B ALA* 1.3 64.9 + - - +
1030B ASP* 3.7 0.7 - - - +
1031B ALA* 2.8 24.3 + - - +
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Residues in contact with ALA1028 (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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931B LEU* 5.2 1.8 - - - -
932B VAL* 3.8 29.8 - - + +
935B VAL* 4.3 17.9 - - + +
1024B ALA 3.0 12.4 + - - +
1025B HIS* 2.9 11.6 + - + +
1027B LEU* 1.3 76.5 - - - +
1029B VAL* 1.3 65.7 + - + +
1031B ALA* 3.2 6.9 + - - +
1032B LYS* 2.9 27.9 + - + +
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Residues in contact with VAL1029 (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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1025B HIS* 3.0 45.7 + - + +
1026B ALA* 3.7 7.0 - - - +
1027B LEU 3.2 0.2 - - - -
1028B ALA* 1.3 80.1 - - + +
1030B ASP* 1.3 64.9 + - - +
1032B LYS* 3.2 14.3 + - + +
1033B ASN* 3.0 39.8 + - - +
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Residues in contact with ASP1030 (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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986B ALA* 5.8 1.0 - - - +
989B LEU* 3.4 28.8 - - + +
990B LEU* 3.5 19.8 - - + +
993B ASP* 2.5 23.5 - - - +
1026B ALA* 3.0 16.3 + - - +
1029B VAL* 1.3 87.2 - - - +
1031B ALA* 1.3 67.2 + - - +
1033B ASN* 3.1 13.7 + - - +
1034B LEU* 3.0 22.7 + - - +
1015C GLU* 5.3 2.6 - - - +
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Residues in contact with ALA1031 (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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928B VAL* 3.8 20.6 - - + +
931B LEU* 3.4 33.4 - - + -
932B VAL* 5.1 1.6 - - + -
964B LEU* 4.2 11.7 - - + -
990B LEU* 3.4 10.6 - - + +
1027B LEU 2.8 11.0 + - - +
1028B ALA* 3.5 9.0 - - - +
1030B ASP* 1.3 77.4 - - - +
1032B LYS* 1.3 61.2 + - - +
1034B LEU* 3.3 13.9 + - - +
1035B LEU 3.3 9.2 + - - -
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Residues in contact with LYS1032 (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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928B VAL* 4.3 17.5 - - + -
932B VAL* 4.4 17.5 - - + -
1028B ALA* 2.9 20.2 + - + +
1029B VAL* 3.5 13.0 - - + +
1030B ASP 3.2 0.4 - - - -
1031B ALA* 1.3 75.3 - - - +
1033B ASN* 1.3 66.6 + - - +
1035B LEU* 3.4 9.2 + - + +
1036B ASP* 3.2 25.0 + - - +
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Residues in contact with ASN1033 (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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910B SER* 4.0 17.3 + - - -
1029B VAL* 3.0 35.8 + - - +
1030B ASP* 3.1 16.6 + - - +
1032B LYS* 1.3 78.0 - - - +
1034B LEU* 1.3 62.9 + - - +
1036B ASP* 3.0 17.4 + - - +
1037B VAL* 3.0 20.7 + - + +
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Residues in contact with LEU1034 (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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924B VAL* 6.0 0.7 - - + -
928B VAL* 5.8 1.3 - - + -
964B LEU* 4.6 11.0 - - + -
965B LEU* 5.3 0.4 - - + -
968B VAL* 4.2 21.3 - - + -
983B ILE* 4.2 20.9 - - + +
986B ALA* 3.6 29.8 - - + -
987B GLN* 4.7 7.4 - - + -
990B LEU* 3.8 28.0 - - + -
1030B ASP 3.0 11.5 + - - +
1031B ALA* 3.5 8.7 - - - +
1032B LYS 3.1 0.2 - - - -
1033B ASN* 1.3 76.4 - - - +
1035B LEU* 1.3 60.6 + - - +
1037B VAL* 3.0 10.4 + - + +
1038B ILE* 2.8 44.8 + - + +
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Residues in contact with LEU1035 (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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913B PRO* 4.3 13.0 - - + -
919B ARG* 4.2 1.6 - - - +
924B VAL* 3.8 25.6 - - + -
925B TYR* 3.9 43.7 - - + +
928B VAL* 4.2 24.9 - - + +
1031B ALA 3.3 8.7 + - - +
1032B LYS* 3.6 12.6 - - + +
1034B LEU* 1.3 80.9 - - - +
1036B ASP* 1.3 65.7 + - - +
1038B ILE* 3.5 5.2 + - - -
1039B ASP* 2.9 45.8 + - - +
1042B ARG* 4.6 1.6 - - - +
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Residues in contact with ASP1036 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910B SER* 3.5 27.7 + - - -
911B PRO* 4.2 8.8 - - - +
913B PRO* 3.8 30.6 - - - +
914B THR 5.0 0.5 + - - -
1032B LYS* 3.2 14.4 + - - +
1033B ASN* 3.0 14.6 + - - +
1035B LEU* 1.3 80.2 - - - +
1037B VAL* 1.3 62.8 + - + +
1039B ASP* 3.2 8.7 + - - +
1040B GLN* 3.1 26.8 + - - +
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Residues in contact with VAL1037 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
979B THR* 5.9 2.5 - - - -
982B GLU* 3.4 37.7 - - + +
983B ILE* 4.0 24.5 - - + +
1033B ASN* 3.0 17.6 + - + +
1034B LEU* 3.0 13.1 + - + +
1036B ASP* 1.3 74.3 - - + +
1038B ILE* 1.3 65.8 + - - +
1039B ASP 2.9 5.7 + - - -
1040B GLN* 3.0 17.9 + - + +
1041B ALA* 3.1 12.4 + - + +
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Residues in contact with ILE1038 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
924B VAL* 3.9 19.7 - - + -
968B VAL* 3.8 38.8 - - + -
971B THR* 4.6 7.6 - - + -
975B LEU* 4.4 13.2 - - + -
983B ILE* 4.4 15.9 - - + -
1034B LEU* 2.8 35.4 + - + +
1035B LEU* 3.9 5.4 - - - +
1037B VAL* 1.3 72.9 - - - +
1039B ASP* 1.3 60.5 + - - +
1041B ALA* 3.5 8.9 - - - +
1042B ARG* 3.2 47.3 + - - +
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Residues in contact with ASP1039 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
913B PRO* 4.2 7.1 - - - +
914B THR* 4.4 7.8 + - + +
917B LEU* 3.7 12.6 - - + +
919B ARG* 2.7 39.9 + - - -
1035B LEU* 2.9 29.1 + - - +
1036B ASP* 3.5 8.9 - - - +
1037B VAL 2.9 0.4 + - - -
1038B ILE* 1.3 73.4 - - - +
1040B GLN* 1.3 69.4 + - - +
1041B ALA 2.9 6.1 + - - -
1042B ARG* 3.0 30.7 + - - +
1043B LEU* 3.1 24.2 + - - +
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Residues in contact with GLN1040 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
914B THR* 5.5 5.5 - - - -
1036B ASP 3.1 11.9 + - - +
1037B VAL* 3.0 12.7 + - + +
1039B ASP* 1.3 82.7 - - - +
1041B ALA* 1.3 59.1 + - - +
1043B LEU* 3.5 23.0 + - - +
1044B LYS* 3.2 22.0 + - - +
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Residues in contact with ALA1041 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
975B LEU* 3.9 18.2 - - + -
976B PRO* 3.7 6.4 - - - +
979B THR* 4.0 31.4 - - + +
983B ILE* 4.8 1.8 - - + -
1037B VAL* 3.1 11.7 + - + +
1038B ILE* 3.5 13.7 - - - +
1039B ASP 2.9 0.2 - - - -
1040B GLN* 1.3 74.2 - - - +
1042B ARG* 1.3 66.5 + - - +
1043B LEU 3.1 1.3 - - - -
1044B LYS* 3.1 9.2 + - - +
1045B MET 2.9 18.5 + - - -
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Residues in contact with ARG1042 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1045A MET* 4.1 13.3 + - - +
1046A LEU* 3.6 40.6 + - + +
917B LEU* 4.3 9.0 - - + -
919B ARG* 4.1 0.6 - - - +
921B ASN 5.4 0.2 + - - -
922B ASP* 3.0 44.8 + - - +
923B LYS 4.9 0.8 - - - +
924B VAL* 3.9 17.4 - - - +
971B THR* 4.8 8.3 + - - +
975B LEU* 3.6 18.8 - - + +
1035B LEU* 4.6 2.4 - - - +
1038B ILE* 3.2 29.3 + - + +
1039B ASP* 3.0 27.3 + - - +
1041B ALA* 1.3 80.0 - - - +
1043B LEU* 1.3 57.5 + - - +
1045B MET* 3.4 5.3 + - - +
1046B LEU* 3.0 34.0 + - - +
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Residues in contact with LEU1043 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
914B THR* 4.5 19.7 - - + +
916B ASN* 3.8 24.7 - - + +
917B LEU* 3.6 28.0 - - + -
1039B ASP 3.1 13.9 + - - +
1040B GLN* 3.9 28.7 - - - +
1041B ALA 3.1 1.6 - - - -
1042B ARG* 1.3 73.9 - - - +
1044B LYS* 1.3 60.7 + - - +
1046B LEU* 3.7 11.2 - - + +
1047B GLY 3.3 27.4 + - - +
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Residues in contact with LYS1044 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
918A ASP* 4.4 15.4 + - - +
976B PRO* 3.6 29.9 - - + +
978B SER* 3.2 28.1 + - - +
979B THR* 4.7 5.8 - - + -
1040B GLN 3.2 12.0 + - - +
1041B ALA* 3.4 9.6 - - - +
1043B LEU* 1.3 76.2 - - - +
1045B MET* 1.3 67.1 + - - +
1047B GLY* 3.1 14.2 + - - -
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Residues in contact with MET1045 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917A LEU* 3.6 10.0 - - + -
918A ASP* 3.1 81.6 + - + +
1042A ARG* 6.2 4.3 - - - -
1046A LEU* 3.6 29.8 - - + -
974B LEU 3.2 23.6 - - - +
975B LEU* 4.6 0.4 - - - -
976B PRO* 4.0 20.3 - - + +
1041B ALA 2.9 12.8 + - - +
1042B ARG* 3.5 10.3 - - - +
1043B LEU 3.4 0.2 - - - -
1044B LYS* 1.3 78.2 - - - +
1046B LEU* 1.3 59.4 + - - +
1047B GLY 3.3 0.3 + - - -
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Residues in contact with LEU1046 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
916A ASN* 3.4 26.9 + - - +
917A LEU* 4.0 5.4 - - + +
1043A LEU* 3.4 33.2 - - + -
1046A LEU* 3.5 39.7 - - + +
1048A GLN* 3.8 32.8 + - + +
917B LEU* 4.1 13.2 - - + -
1042B ARG 3.0 18.9 + - - +
1043B LEU* 3.6 11.6 + - + +
1044B LYS 3.2 0.4 - - - -
1045B MET* 1.3 75.5 - - - +
1047B GLY* 1.3 63.0 + - - +
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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