Contacts of the helix formed by residues 989 - 1014 (chain B) in PDB entry 6IEH
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 PHE 989 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A GLU* 6.1 3.4 - - + -
214A LYS* 3.6 40.4 - - + -
396B LYS* 3.7 39.5 - - + -
397B LYS* 5.3 8.7 - - + -
400B GLU* 5.4 0.7 - - - -
456B HIS* 3.9 12.1 - + - -
458B GLY* 3.8 16.6 - - - +
987B ASP 3.9 10.3 - - - -
988B VAL* 1.3 78.9 - - - +
990B GLU* 1.3 72.6 + - - +
991B GLY 3.2 0.2 - - - -
992B SER* 3.1 10.7 + - - +
993B ILE* 3.0 18.9 + - - +
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Residues in contact with GLU 990 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A LYS* 2.4 41.4 + - - -
215A HIS* 4.5 1.6 + - - -
440B GLN* 3.6 24.3 + - + +
458B GLY 3.3 6.1 - - - +
459B LEU* 3.7 9.0 - - - +
460B LEU* 3.1 39.7 - - + +
979B PHE* 4.7 0.9 - - + -
983B CYS* 4.5 20.7 - - - -
989B PHE* 1.3 73.4 - - - +
991B GLY* 1.3 59.9 + - - +
993B ILE* 3.1 9.5 + - - +
994B ILE* 2.9 32.2 + - - +
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Residues in contact with GLY 991 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457B GLY 3.9 7.6 - - - -
458B GLY 2.1 34.8 + - - -
459B LEU 3.4 13.0 - - - -
460B LEU* 4.4 1.3 - - - -
461B PRO* 4.9 2.9 - - - +
990B GLU* 1.3 71.5 - - - +
992B SER* 1.3 55.7 + - - +
994B ILE* 3.3 6.4 + - - +
995B ARG* 2.9 31.9 + - - +
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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
----------------------------------------------------------
396B LYS* 5.1 6.6 + - - -
457B GLY 5.2 0.2 - - - -
458B GLY* 3.8 7.9 + - - -
914B PHE* 5.1 2.3 - - - -
916B GLU* 3.0 43.0 + - - +
988B VAL* 4.0 15.5 - - - -
989B PHE* 3.1 18.6 + - - +
991B GLY* 1.3 74.2 - - - +
993B ILE* 1.3 66.1 + - - +
995B ARG* 3.7 5.6 + - - +
996B CYS* 3.3 20.3 + - - +
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Residues in contact with ILE 993 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
914B PHE* 6.2 0.9 - - - -
966B LEU* 6.5 1.6 - - + -
969B VAL* 4.7 10.1 - - + -
979B PHE* 4.2 17.5 - - + -
982B ILE* 4.6 15.5 - - + +
983B CYS* 4.4 28.7 - - - -
986B THR* 3.8 22.9 - - + -
988B VAL* 3.4 20.4 - - + +
989B PHE 3.0 17.6 + - - +
990B GLU* 3.1 8.3 + - - +
992B SER* 1.3 79.4 - - - +
994B ILE* 1.3 63.6 + - - +
996B CYS* 3.2 12.2 + - - +
997B MET* 3.3 20.2 + - + +
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Residues in contact with ILE 994 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
460B LEU* 4.4 11.4 - - + -
461B PRO* 4.2 31.6 - - + -
979B PHE* 3.5 22.7 - - + -
990B GLU 2.9 17.1 + - - +
991B GLY* 3.7 7.2 - - - +
993B ILE* 1.3 76.7 - - - +
995B ARG* 1.3 62.2 + - - +
997B MET* 3.3 4.6 + - - +
998B ARG* 3.0 22.8 + - + +
1034B ILE* 4.5 9.9 - - + +
1035B VAL* 3.8 49.3 - - + +
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Residues in contact with ARG 995 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457B GLY* 3.4 34.1 + - - -
464B LYS* 4.3 16.4 - - - +
916B GLU* 3.6 22.6 + - - +
991B GLY 2.9 22.4 + - - +
992B SER* 3.7 9.3 + - - +
994B ILE* 1.3 77.0 - - - +
996B CYS* 1.3 64.4 + - - +
998B ARG* 3.1 16.6 + - - +
999B ARG* 3.2 21.4 + - + +
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Residues in contact with CYS 996 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910B SER* 4.6 12.8 - - - -
913B VAL* 3.5 23.5 - - - +
914B PHE* 4.0 35.7 - - + -
916B GLU* 5.7 1.3 - - + +
966B LEU* 5.4 4.3 - - + -
970B VAL* 5.1 6.3 - - - -
992B SER 3.3 8.8 + - - +
993B ILE* 3.2 10.6 + - - +
994B ILE 3.2 0.2 - - - -
995B ARG* 1.3 83.5 - - - +
997B MET* 1.3 64.7 + - - +
999B ARG* 3.6 4.2 + - - -
1000B LEU* 3.0 19.8 + - - +
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Residues in contact with MET 997 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
969B VAL* 6.4 0.9 - - - -
970B VAL* 4.2 26.9 - - + -
973B TRP* 3.6 33.7 - - + +
979B PHE* 6.0 1.3 - - + -
982B ILE* 5.8 2.5 - - + -
993B ILE* 3.3 21.7 + - + +
994B ILE* 3.3 7.1 + - - +
995B ARG 3.2 0.4 - - - -
996B CYS* 1.3 81.8 - - - +
998B ARG* 1.3 58.8 + - - +
1000B LEU* 2.9 20.3 + - + +
1001B GLU 3.0 10.7 + - - -
1030B ILE* 2.9 42.6 - - + +
1035B VAL* 4.1 16.2 - - + -
1036B PHE* 3.9 11.9 - - + -
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Residues in contact with ARG 998 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B ASP* 5.9 3.4 - - - +
994B ILE* 3.0 15.3 + - + +
995B ARG* 3.1 11.4 + - - +
997B MET* 1.3 76.9 - - - +
999B ARG* 1.3 61.0 + - + +
1001B GLU* 3.6 5.7 + - - +
1002B GLU* 3.3 18.5 + - - +
1035B VAL 5.5 3.6 - - - +
1036B PHE* 4.2 18.9 - - + -
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Residues in contact with ARG 999 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230B GLU* 4.8 12.7 + - - -
262B ARG* 6.2 1.8 - - - +
882B SER* 5.4 13.2 + - - +
913B VAL* 3.9 25.8 - - + +
995B ARG* 3.2 17.6 + - + +
996B CYS* 3.8 9.4 - - - +
998B ARG* 1.3 75.2 - - + +
1000B LEU* 1.3 59.3 + - - +
1002B GLU* 3.0 24.3 + - - +
1003B LEU* 2.7 30.0 + - - +
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Residues in contact with LEU1000 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906B THR* 3.5 21.3 - - - +
909B LEU* 4.0 15.5 - - + +
910B SER* 4.0 15.3 - - - -
913B VAL* 4.2 11.4 - - + -
970B VAL* 3.8 24.2 - - + -
996B CYS* 3.0 16.0 + - - +
997B MET* 2.9 22.3 + - + +
999B ARG* 1.3 78.0 - - - +
1001B GLU* 1.3 54.5 + - - +
1003B LEU* 3.4 4.6 + - + -
1004B LEU* 2.9 46.8 + - + +
1030B ILE* 4.3 8.7 - - + -
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Residues in contact with GLU1001 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B GLY 6.1 0.7 - - - -
215B ASP* 5.5 7.3 - - - +
997B MET 3.0 6.4 + - - +
998B ARG 3.8 8.9 - - - +
1000B LEU* 1.3 73.1 - - - +
1002B GLU* 1.3 73.4 + - - +
1004B LEU* 3.3 9.8 + - - +
1005B ARG* 3.1 25.7 + - - +
1027B ILE* 4.4 18.4 - - + +
1030B ILE* 5.2 4.0 - - + +
1031B LYS* 4.2 34.4 - - + +
1036B PHE* 4.1 20.5 - - + -
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Residues in contact with GLU1002 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B GLY* 4.5 14.5 - - - -
215B ASP* 4.3 17.2 - - - +
230B GLU* 4.8 9.5 - - - +
882B SER* 4.1 16.4 - - - +
998B ARG 3.3 8.5 + - - +
999B ARG* 3.0 35.0 + - - +
1001B GLU* 1.3 86.4 + - - +
1003B LEU* 1.3 61.8 + - - +
1005B ARG* 3.5 6.5 + - - +
1006B GLN* 3.2 26.6 + - + +
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Residues in contact with LEU1003 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
880B ILE* 4.2 12.8 - - + -
882B SER* 4.3 11.4 - - - -
883B ALA* 4.2 4.0 - - + -
888B LEU* 4.3 0.7 - - + -
909B LEU* 4.0 22.0 - - + -
912B PHE* 3.8 24.7 - - + -
913B VAL* 3.6 25.6 - - + -
999B ARG 2.7 17.2 + - - +
1000B LEU* 3.6 6.1 - - + +
1002B GLU* 1.3 74.2 - - - +
1004B LEU* 1.3 57.4 + - + +
1006B GLN* 3.0 14.0 + - + -
1007B MET* 2.7 52.6 + - - +
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Residues in contact with LEU1004 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906B THR* 4.2 11.7 - - + -
909B LEU* 3.6 25.1 - - + -
1000B LEU* 2.9 43.9 + - + +
1001B GLU* 3.3 3.5 + - - +
1003B LEU* 1.3 76.9 - - + +
1005B ARG* 1.3 52.8 + - - +
1007B MET* 3.5 5.9 - - - +
1008B CYS* 2.6 35.2 + - - +
1023B PHE* 4.2 18.9 - - + +
1026B GLY 4.0 6.7 - - - +
1027B ILE* 3.4 46.7 - - + +
1030B ILE* 4.8 4.9 - - + -
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Residues in contact with ARG1005 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1001B GLU* 3.1 18.8 + - - +
1002B GLU* 3.7 11.4 - - - +
1004B LEU* 1.3 72.9 - - - +
1006B GLN* 1.3 68.4 + - - +
1008B CYS* 3.5 9.0 - - - +
1009B GLN* 3.2 24.3 + - - +
1027B ILE* 4.9 3.0 - - + +
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Residues in contact with GLN1006 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
878B CYS 5.1 0.2 + - - -
879B GLU* 2.4 43.6 + - - +
880B ILE* 3.9 11.8 - - - +
881B SER* 3.0 28.2 - - - +
882B SER* 2.7 25.8 - - - +
1002B GLU* 3.2 16.1 + - + +
1003B LEU* 3.0 12.6 + - + +
1005B ARG* 1.3 77.5 - - - +
1007B MET* 1.3 62.0 + - - +
1009B GLN* 3.6 2.4 + - - +
1010B ALA* 3.4 16.3 + - - +
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Residues in contact with MET1007 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
880B ILE* 3.5 10.8 - - + -
888B LEU* 3.1 55.9 - - + +
892B MET* 4.5 8.6 - - + +
897B PHE* 4.5 13.7 - - + -
909B LEU* 4.1 18.6 - - + -
1003B LEU* 2.7 29.1 + - + +
1004B LEU* 3.5 9.2 - - + +
1006B GLN* 1.3 71.4 - - - +
1008B CYS* 1.3 65.6 + - - +
1010B ALA* 3.2 6.3 + - + +
1011B ALA* 3.2 21.1 + - - +
1023B PHE* 3.7 35.1 - - + -
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Residues in contact with CYS1008 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1004B LEU 2.6 20.7 + - - +
1005B ARG* 3.5 11.7 - - - +
1007B MET* 1.3 75.0 - - - +
1009B GLN* 1.3 70.1 + - - +
1011B ALA* 3.3 13.4 + - - +
1012B LYS* 3.5 9.5 + - - +
1020B GLU* 4.1 14.0 - - - +
1023B PHE* 4.6 6.9 - - - +
1024B ALA* 3.5 38.1 - - - -
1027B ILE* 6.0 2.2 - - - -
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Residues in contact with GLN1009 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
879B GLU* 3.7 30.2 - - + +
1005B ARG 3.2 13.3 + - - +
1006B GLN* 3.9 4.9 - - - +
1008B CYS* 1.3 81.6 - - - +
1010B ALA* 1.3 65.3 + - - +
1012B LYS* 3.1 22.4 + - - +
1013B ALA* 3.3 11.3 + - - +
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Residues in contact with ALA1010 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
876B VAL* 3.5 27.6 - - + +
879B GLU* 3.9 12.5 - - + +
880B ILE* 4.3 11.0 - - + -
892B MET* 4.7 10.1 - - - -
1006B GLN 3.4 11.8 + - - +
1007B MET* 3.2 12.7 + - - +
1009B GLN* 1.3 76.8 - - - +
1011B ALA* 1.3 64.4 + - - +
1013B ALA* 3.1 18.4 + - - +
1014B ILE* 3.4 9.7 + - - +
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Residues in contact with ALA1011 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
892B MET* 4.0 16.5 - - + +
1007B MET 3.2 8.8 + - - +
1008B CYS 3.5 10.5 - - - +
1009B GLN 3.2 0.4 - - - -
1010B ALA* 1.3 78.7 - - - +
1012B LYS* 1.3 62.4 + - - +
1014B ILE* 3.1 16.0 + - - +
1015B GLY 2.9 18.0 + - - -
1016B ASN 3.4 7.9 + - - +
1019B LEU* 4.0 9.2 - - + +
1020B GLU* 3.8 28.3 - - - +
1023B PHE* 5.1 0.4 - - + -
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Residues in contact with LYS1012 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1008B CYS 3.5 6.2 + - - +
1009B GLN* 3.1 21.3 + - - +
1011B ALA* 1.3 78.7 - - - +
1013B ALA* 1.3 61.1 + - - +
1015B GLY* 3.3 13.4 + - - +
1016B ASN 5.3 1.3 - - - -
1020B GLU* 5.1 5.5 - - + +
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Residues in contact with ALA1013 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872B MET* 4.8 8.7 - - - +
875B ARG* 4.5 12.2 - - + +
876B VAL* 4.3 17.9 - - - +
879B GLU* 4.9 7.9 - - - +
1009B GLN 3.3 7.1 + - - +
1010B ALA* 3.1 13.1 + - - +
1012B LYS* 1.3 79.3 - - - +
1014B ILE* 1.3 60.4 + - - +
1015B GLY 3.2 0.6 + - - -
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Residues in contact with ILE1014 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
872B MET* 4.0 28.9 - - - +
876B VAL* 3.9 18.2 - - + -
892B MET* 5.0 7.9 - - + -
893B PHE* 3.8 34.8 - - + -
1010B ALA 3.4 8.5 + - - +
1011B ALA* 3.2 18.6 - - - +
1013B ALA* 1.3 77.1 - - - +
1015B GLY* 1.3 58.1 + - - +
1016B ASN* 3.2 26.0 - - + +
1019B LEU* 4.6 7.2 - - + -
----------------------------------------------------------
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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