Contacts of the helix formed by residues 989 - 1009 (chain B) in PDB entry 2WIN
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 GLY 989 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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988B CYS* 1.3 82.1 - - - +
990B GLU* 1.3 61.2 + - - +
992B ASN 4.1 0.2 - - - -
993B MET* 3.4 12.8 + - - +
1034B GLN* 3.1 25.5 + - - +
1037B PHE* 3.7 17.7 - - - -
1046B ALA* 3.5 25.0 + - - -
1056B LEU* 4.8 2.7 - - - -
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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
----------------------------------------------------------
988B CYS* 5.7 1.6 - - + -
989B GLY* 1.3 71.5 - - - +
991B GLN* 1.3 70.4 + - + +
992B ASN 3.1 2.0 - - - -
993B MET* 3.1 4.8 + - - +
994B ILE* 3.1 28.9 + - - +
1046B ALA* 3.4 20.6 - - + +
1056B LEU* 4.3 20.2 - - + -
1102B VAL* 3.5 11.7 - - + +
1103B ILE* 3.1 39.7 + - - +
1104B HIS* 3.0 42.9 + - + +
1107B MET* 3.8 15.3 - - - +
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Residues in contact with GLN 991 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
986B SER 3.1 10.5 - - - +
987B GLY* 3.9 14.4 - - - -
988B CYS* 3.6 31.6 - - + +
989B GLY 3.5 1.0 - - - +
990B GLU* 1.3 78.9 - - + +
992B ASN* 1.3 60.6 + - - +
994B ILE* 3.7 10.6 + - + +
995B GLY* 3.5 15.8 + - - -
1047B PHE* 5.9 0.8 - - - -
1104B HIS* 3.4 34.5 + - + +
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Residues in contact with ASN 992 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
985B PRO* 3.2 22.9 - - - +
986B SER 3.4 12.8 + - - +
987B GLY 4.6 0.2 - - - -
988B CYS 3.2 21.7 + - - +
989B GLY 3.9 0.2 - - - +
990B GLU 3.1 0.2 - - - -
991B GLN* 1.3 78.4 - - - +
993B MET* 1.3 59.0 + - - +
995B GLY 3.5 1.6 + - - -
996B MET* 3.1 24.5 + - - +
1030B GLY* 3.2 24.1 + - - -
1033B GLN* 3.2 33.2 + - - +
1034B GLN* 3.3 22.1 + - - +
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Residues in contact with MET 993 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
989B GLY 3.4 17.3 - - - +
990B GLU* 3.1 8.6 + - - +
992B ASN* 1.3 75.8 - - - +
994B ILE* 1.3 56.1 + - - +
995B GLY 3.1 1.8 - - - -
996B MET* 3.1 8.3 + - + +
997B THR* 2.8 39.7 + - - +
1030B GLY 5.7 0.9 - - - +
1034B GLN* 3.4 36.6 - - - +
1056B LEU* 4.4 11.7 - - + -
1059B TYR* 4.0 26.2 - - + -
1060B VAL* 4.3 14.6 - - + -
1063B VAL* 4.1 22.4 - - + -
1064B PHE* 4.6 9.0 - - + -
1107B MET* 4.4 12.8 - - + -
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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
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990B GLU 3.1 18.6 + - - +
991B GLN* 4.0 8.1 - - - +
992B ASN 3.4 0.2 - - - -
993B MET* 1.3 76.9 - - - +
995B GLY* 1.3 58.1 + - - +
997B THR* 4.1 3.7 - - - -
998B PRO* 3.1 20.1 - - - +
1104B HIS* 4.3 20.9 - - + +
1106B GLU* 4.3 8.3 - - + +
1107B MET* 3.6 38.1 - - + -
1245B GLY* 6.1 3.1 - - - +
1246B SER 6.1 0.9 - - - +
1247B THR* 3.3 23.0 + - - +
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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
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983B VAL* 3.1 36.2 - - - +
984B THR 5.1 0.4 - - - -
985B PRO* 4.1 12.8 - - - -
986B SER 5.2 0.7 - - - -
991B GLN 3.5 11.3 + - - -
992B ASN 3.9 3.6 - - - -
993B MET 3.1 0.4 - - - -
994B ILE* 1.3 79.7 - - - +
996B MET* 1.3 59.4 - - - +
998B PRO* 3.4 13.7 - - - +
999B THR* 3.8 0.5 + - - -
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Residues in contact with MET 996 (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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985B PRO* 3.8 20.6 - - + -
992B ASN* 3.1 16.3 + - - +
993B MET* 3.1 14.2 + - + +
995B GLY* 1.3 76.8 - - - +
997B THR* 1.3 66.0 + - - +
998B PRO 3.5 0.7 - - - -
999B THR* 3.5 4.2 + - - -
1000B VAL* 3.1 33.4 + - + +
1026B LEU 5.6 0.2 - - - +
1027B ILE* 5.8 2.7 - - - +
1030B GLY* 4.6 11.7 - - - +
1063B VAL* 5.7 2.5 - - + -
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Residues in contact with THR 997 (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 MET* 2.8 22.0 + - - +
994B ILE 4.1 1.6 - - - -
996B MET* 1.3 77.9 - - - +
998B PRO* 1.3 71.3 - - + +
1000B VAL* 3.9 3.9 - - - +
1001B ILE* 3.2 23.3 + - + +
1059B TYR* 2.7 34.3 + - - +
1063B VAL* 4.7 5.4 - - - +
1247B THR* 3.5 33.9 - - + +
1250B THR* 5.3 2.2 - - - -
1251B PHE* 3.6 20.4 - - + +
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Residues in contact with PRO 998 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
981B LEU* 3.1 39.0 - - + +
983B VAL* 4.0 13.7 - - + -
994B ILE 3.1 19.7 - - - +
995B GLY* 3.4 14.8 - - - +
996B MET 3.6 0.7 - - - -
997B THR* 1.3 94.7 - - + +
999B THR* 1.3 58.4 + - - +
1001B ILE* 3.3 10.2 - - + +
1002B ALA* 3.0 30.8 + - - +
1247B THR* 6.4 0.2 - - - -
1250B THR* 4.8 4.3 - - + -
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Residues in contact with THR 999 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
981B LEU 2.9 7.5 + - - -
982B ILE* 4.5 8.5 - - + -
983B VAL 2.8 37.7 + - - -
985B PRO* 5.4 0.9 - - - -
995B GLY 3.8 2.0 + - - -
996B MET* 3.5 8.5 + - - -
997B THR 3.3 0.4 - - - -
998B PRO* 1.3 78.0 - - - +
1000B VAL* 1.3 63.0 + - - +
1002B ALA* 3.3 3.5 + - - +
1003B VAL* 3.2 23.7 + - - +
1023B ALA* 3.8 21.5 - - + +
1026B LEU* 4.2 12.6 - - + -
1027B ILE* 3.5 23.6 - - + -
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Residues in contact with VAL1000 (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 MET* 3.1 25.5 + - + +
997B THR* 3.9 2.9 - - - +
999B THR* 1.3 77.7 - - - +
1001B ILE* 1.3 62.2 + - - +
1002B ALA 3.3 0.2 + - - -
1003B VAL* 3.4 3.1 + - - +
1004B HIS* 3.2 20.6 + - - +
1027B ILE* 3.8 32.8 - - + +
1063B VAL* 4.0 27.1 - - + -
1066B LEU* 4.2 15.5 - - + -
1067B ALA* 3.9 24.2 - - + -
1070B LEU* 4.0 4.7 - - + +
1251B PHE* 4.7 4.0 - - + -
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Residues in contact with ILE1001 (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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981B LEU* 4.9 1.1 - - + -
997B THR 3.2 17.6 + - - +
998B PRO* 3.3 11.7 - - + +
1000B VAL* 1.3 78.5 - - - +
1002B ALA* 1.3 66.9 + - - +
1004B HIS* 3.9 11.2 - - + -
1005B TYR* 3.1 22.0 + - - +
1066B LEU* 4.2 18.8 - - + -
1250B THR* 4.2 19.3 - - + +
1251B PHE* 3.4 37.0 - - + +
1254B PHE* 3.5 23.7 - - + +
1255B GLN* 3.8 20.4 - - + +
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Residues in contact with ALA1002 (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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981B LEU* 3.7 28.3 - - + -
982B ILE* 4.4 12.1 - - + -
998B PRO 3.0 20.7 + - - +
999B THR* 3.5 8.3 - - - +
1000B VAL 3.1 0.2 - - - -
1001B ILE* 1.3 76.6 - - - +
1003B VAL* 1.3 61.4 + - - +
1005B TYR* 3.2 6.2 + - - +
1006B LEU* 3.0 40.2 + - + +
1254B PHE* 6.1 0.2 - - - -
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Residues in contact with VAL1003 (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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982B ILE* 5.2 1.1 - - + -
999B THR 3.2 16.4 + - - +
1000B VAL 4.0 4.0 - - - +
1002B ALA* 1.3 77.6 - - + +
1004B HIS* 1.3 56.9 + - - +
1006B LEU* 3.9 0.2 - - - -
1007B ASP* 2.9 56.5 + - - +
1012B TRP* 4.0 19.3 - - + -
1020B ARG* 4.1 10.1 - - - +
1023B ALA* 3.7 25.8 - - + -
1024B LEU* 4.3 7.4 - - + -
1027B ILE* 3.6 18.2 - - + -
1070B LEU* 3.9 15.0 - - + -
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Residues in contact with HIS1004 (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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1000B VAL 3.2 10.6 + - - +
1001B ILE* 3.9 17.9 - - + +
1002B ALA 3.3 0.2 - - - -
1003B VAL* 1.3 79.0 - - - +
1005B TYR* 1.3 58.7 - - - +
1007B ASP* 4.0 7.4 - - - +
1008B GLU* 3.6 35.8 + - + +
1066B LEU* 3.5 48.0 + - + +
1070B LEU* 4.7 8.3 - - + +
1254B PHE 4.8 0.2 - - - -
1255B GLN* 4.9 6.7 + - - +
1258B ALA* 3.8 22.8 - - + +
1259B GLN* 5.2 5.8 + - - -
1262B LYS* 5.1 12.4 - - - -
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Residues in contact with TYR1005 (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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972B ALA* 3.0 14.9 - - + +
973B VAL* 2.9 53.1 + - + +
975B ALA* 6.0 1.1 - - + -
978B LEU* 6.0 1.3 - - + -
1001B ILE 3.1 17.3 + - - +
1002B ALA* 3.6 5.4 - - - +
1003B VAL 3.1 0.2 - - - -
1004B HIS* 1.3 78.3 - - - +
1006B LEU* 1.3 72.4 + - + +
1007B ASP 3.2 0.2 - - - -
1008B GLU* 3.5 2.1 + - - +
1009B THR* 2.8 47.2 + - + +
1011B GLN* 4.6 3.6 - - - -
1254B PHE* 3.2 42.0 - + + +
1257B LEU* 3.4 33.4 - - + +
1258B ALA* 3.7 14.4 - - + -
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Residues in contact with LEU1006 (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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975B ALA* 4.2 24.2 - - + -
982B ILE* 5.7 1.3 - - + -
1002B ALA* 3.0 25.7 + - + +
1003B VAL 4.0 0.2 - - - +
1005B TYR* 1.3 85.3 - - + +
1007B ASP* 1.3 58.3 + - - +
1009B THR* 3.4 5.6 - - - +
1010B GLU* 3.0 22.9 + - - -
1011B GLN* 3.4 18.1 + - + +
1012B TRP* 3.3 63.2 - - + +
1015B PHE* 4.1 24.0 - - + -
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Residues in contact with ASP1007 (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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41A PRO* 3.7 18.0 - - + +
1003B VAL* 2.9 28.9 + - - +
1004B HIS* 4.0 6.4 - - - +
1005B TYR 3.2 0.4 - - - -
1006B LEU* 1.3 78.8 - - - +
1008B GLU* 1.3 66.4 + - + +
1009B THR 3.4 0.3 + - - -
1010B GLU* 3.5 13.2 + - - +
1012B TRP* 2.7 26.0 + - - +
1020B ARG* 3.4 29.2 + - - -
1070B LEU* 3.6 11.6 - - - +
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Residues in contact with GLU1008 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1004B HIS* 3.6 27.9 + - + +
1005B TYR 3.5 4.3 + - - +
1007B ASP* 1.3 81.9 - - + +
1009B THR* 1.3 58.9 + - + +
1010B GLU* 3.4 10.0 - - - +
1258B ALA* 4.1 24.5 - - + +
1261B GLN* 3.9 16.6 - - + +
1262B LYS* 3.2 42.7 + - + +
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Residues in contact with THR1009 (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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972B ALA* 4.0 17.0 - - + -
1005B TYR* 2.8 37.5 + - + +
1006B LEU* 3.4 9.5 - - - +
1008B GLU* 1.3 83.1 - - + +
1010B GLU* 1.3 85.4 + - - +
1011B GLN* 2.9 43.3 + - - +
1261B GLN* 4.0 16.6 - - + -
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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
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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) + - + + + + + -
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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