Contacts of the helix formed by residues 1001 - 1022 (chain A) in PDB entry 4ASE
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 THR1001 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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935A PHE* 3.5 11.6 - - - -
936A VAL* 3.0 20.0 - - + +
937A PRO 4.1 4.3 - - - -
938A TYR* 5.0 0.4 - - - -
939A LYS 3.8 17.9 - - - +
999A PHE* 3.8 7.9 - - + +
1000A LEU* 1.3 79.5 - - - +
1002A LEU* 1.3 65.5 + - - +
1003A GLU* 3.4 16.8 + - - +
1004A HIS* 2.6 43.1 + - + +
1005A LEU* 3.3 10.4 + - - +
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Residues in contact with LEU1002 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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935A PHE* 3.8 8.5 - - + -
936A VAL 3.7 1.8 + - - -
937A PRO* 3.0 26.1 + - + +
938A TYR* 3.6 21.8 - - + +
1001A THR* 1.3 74.7 - - - +
1003A GLU* 1.3 63.4 + - - +
1005A LEU* 3.1 8.6 + - + +
1006A ILE* 3.0 31.6 + - + +
1099A PHE* 3.8 26.5 - - + -
1130A TYR 4.1 14.4 - - - +
1132A THR* 3.7 24.9 - - + -
1167A ASN* 3.5 26.9 - - - +
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Residues in contact with GLU1003 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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937A PRO 4.6 0.4 + - - -
1001A THR* 3.2 10.7 + - - +
1002A LEU* 1.3 79.1 - - - +
1004A HIS* 1.3 58.7 + - + +
1006A ILE* 3.4 6.0 + - - +
1007A CYS* 2.8 33.5 + - + +
1164A LEU* 3.8 17.7 - - + +
1167A ASN* 3.5 23.0 + - - +
1168A ALA* 5.6 8.3 - - - +
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Residues in contact with HIS1004 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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999A PHE 3.6 20.4 + - - -
1000A LEU* 3.4 21.3 - - + -
1001A THR* 2.6 42.6 + - + +
1003A GLU* 1.3 79.8 - - + +
1005A LEU* 1.3 56.2 + - - +
1007A CYS* 3.2 7.4 + - + +
1008A TYR* 2.8 40.2 + + + -
1040A ASN* 3.7 39.7 + - + -
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Residues in contact with LEU1005 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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928A LEU* 4.2 11.9 - - + -
935A PHE* 3.6 29.6 - - + -
1000A LEU* 4.2 16.4 - - + -
1001A THR 3.3 7.1 + - - +
1002A LEU* 3.1 11.6 + - + +
1004A HIS* 1.3 82.5 - - - +
1006A ILE* 1.3 59.6 + - - +
1008A TYR* 3.5 6.5 + - + +
1009A SER* 2.9 27.3 + - - -
1098A ILE* 3.7 29.8 - - + +
1099A PHE* 3.7 27.4 - - + -
1101A LEU* 4.0 20.9 - - + -
1130A TYR* 4.5 7.4 - - + -
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Residues in contact with ILE1006 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1002A LEU* 3.0 24.8 + - + +
1003A GLU* 3.7 2.2 - - - +
1005A LEU* 1.3 76.1 - - - +
1007A CYS* 1.3 57.7 + - - +
1009A SER* 3.2 7.8 + - - -
1010A PHE* 2.9 27.4 + - - +
1099A PHE* 4.2 15.3 - - + -
1132A THR* 5.5 3.4 - - + -
1135A MET* 5.0 8.7 - - + -
1160A LEU* 4.1 15.7 - - + +
1163A LEU* 4.3 12.3 - - + +
1164A LEU* 3.5 34.3 - - + +
1167A ASN* 3.7 37.5 - - + +
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Residues in contact with CYS1007 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1003A GLU* 2.8 19.6 + - + +
1004A HIS* 3.5 9.0 - - + +
1006A ILE* 1.3 74.9 - - - +
1008A TYR* 1.3 65.9 + - + +
1010A PHE* 3.4 4.4 + - - +
1011A GLN* 3.0 49.5 + - - +
1040A ASN* 4.9 6.1 - - - -
1164A LEU* 3.8 23.5 - - + +
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Residues in contact with TYR1008 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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924A LEU* 4.0 28.5 - - + -
927A TYR* 4.1 12.2 + + - -
928A LEU* 4.1 11.4 - - + -
1000A LEU* 3.9 26.3 - - + +
1004A HIS* 2.8 32.8 + - + +
1005A LEU* 3.7 9.9 - - + +
1006A ILE 3.3 0.2 - - - -
1007A CYS* 1.3 73.2 - - + +
1009A SER* 1.3 62.2 + - - +
1011A GLN* 3.3 5.4 + - - +
1012A VAL* 3.0 29.5 + - - +
1036A LEU* 4.2 10.0 - - + +
1040A ASN* 2.8 50.5 + - + -
1042A VAL* 3.8 25.2 - - + +
1098A ILE* 4.4 13.9 - - + -
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Residues in contact with SER1009 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1005A LEU 2.9 14.0 + - - -
1006A ILE* 3.5 9.6 - - - -
1008A TYR* 1.3 76.7 - - - +
1010A PHE* 1.3 63.4 + - - +
1012A VAL* 3.4 2.0 + - - -
1013A ALA 3.0 18.4 + - - -
1091A PHE* 3.5 7.2 - - - -
1095A LEU* 3.4 31.1 - - - +
1098A ILE* 3.7 12.8 - - - +
1099A PHE* 3.5 13.0 - - - -
1160A LEU* 3.5 21.6 - - - +
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Residues in contact with PHE1010 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1006A ILE 2.9 16.4 + - - +
1007A CYS* 3.5 8.3 - - - +
1009A SER* 1.3 77.1 - - - +
1011A GLN* 1.3 66.6 + - + +
1013A ALA* 3.2 3.6 + - - +
1014A LYS* 2.9 56.7 + - + +
1157A VAL* 3.6 31.6 - - + -
1160A LEU* 3.8 16.0 - - + +
1161A GLY* 3.7 28.5 - - - -
1164A LEU* 4.2 20.9 - - + -
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Residues in contact with GLN1011 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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896A LEU* 4.9 3.9 - - + +
897A ASN* 2.9 42.4 + - - +
1007A CYS* 3.0 43.1 + - - +
1008A TYR* 3.3 6.0 + - - +
1010A PHE* 1.3 86.3 - - + +
1012A VAL* 1.3 59.0 + - - +
1014A LYS* 3.2 5.3 + - - +
1015A GLY 2.9 23.4 + - - -
1040A ASN 2.9 23.8 + - - -
1041A VAL* 3.3 9.1 - - - +
1042A VAL* 3.0 30.7 + - + -
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Residues in contact with VAL1012 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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897A ASN* 5.3 1.1 - - - -
924A LEU* 5.5 0.9 - - + -
1008A TYR 3.0 17.5 + - - +
1009A SER 3.9 4.0 - - - +
1011A GLN* 1.3 72.7 - - - +
1013A ALA* 1.3 61.3 + - - +
1015A GLY 3.3 0.6 + - - +
1016A MET* 2.9 32.2 + - + +
1029A LEU* 4.5 4.9 - - + -
1034A ILE* 4.1 37.5 - - + -
1042A VAL* 4.0 15.5 - - + -
1044A ILE* 3.7 15.2 - - + +
1091A PHE* 3.7 22.7 - - + -
1094A LEU* 4.5 13.0 - - + -
1098A ILE* 5.3 2.7 - - + -
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Residues in contact with ALA1013 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1009A SER 3.0 14.0 + - - +
1010A PHE 3.5 9.0 - - - +
1012A VAL* 1.3 77.0 - - - +
1014A LYS* 1.3 56.8 + - - +
1016A MET* 3.3 1.7 + - - +
1017A GLU* 2.8 30.7 + - - +
1091A PHE* 3.8 13.3 - - + -
1153A PHE* 4.3 10.0 - - + +
1156A LEU* 4.3 6.7 - - + -
1157A VAL* 3.5 23.7 - - + +
1160A LEU* 3.9 17.3 - - + -
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Residues in contact with LYS1014 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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895A HIS* 4.1 22.4 + - + -
897A ASN* 3.8 11.7 + - - +
1010A PHE* 2.9 45.7 + - + +
1011A GLN* 3.2 9.6 + - - +
1013A ALA* 1.3 75.7 - - - +
1015A GLY* 1.3 57.0 + - - +
1017A GLU* 3.3 11.3 + - - +
1018A PHE* 2.9 28.2 + - - +
1157A VAL* 3.5 29.6 - - + -
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Residues in contact with GLY1015 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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895A HIS* 4.2 8.5 - - - -
897A ASN* 3.9 16.5 - - - +
898A VAL* 4.1 3.1 - - - +
1011A GLN 2.9 13.5 + - - -
1012A VAL 3.3 0.6 + - - -
1014A LYS* 1.3 76.4 - - - +
1016A MET* 1.3 57.1 + - - +
1018A PHE* 3.3 3.7 + - - +
1019A LEU* 2.8 31.4 + - - +
1044A ILE* 3.5 18.8 - - - -
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Residues in contact with MET1016 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1012A VAL* 2.9 23.5 + - + +
1013A ALA 3.8 0.2 - - - +
1015A GLY* 1.3 74.4 - - - +
1017A GLU* 1.3 59.8 + - - +
1019A LEU* 3.7 17.4 - - + +
1020A ALA* 2.8 31.2 + - - +
1025A ILE* 5.6 0.4 - - - -
1026A HIS* 4.1 13.2 - - + +
1029A LEU* 4.0 24.9 - - + -
1044A ILE* 3.4 18.4 - - + +
1084A ILE* 4.2 7.0 - - + -
1087A ASP* 3.5 29.4 - - + +
1153A PHE* 3.5 48.1 - - + -
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Residues in contact with GLU1017 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1013A ALA 2.8 22.2 + - - +
1014A LYS* 3.6 12.0 - - - +
1016A MET* 1.3 71.9 - - - +
1018A PHE* 1.3 62.1 + - - +
1020A ALA* 3.4 5.3 + - - +
1021A SER* 3.0 23.6 + - - -
1153A PHE* 3.9 12.9 - - + +
1154A SER* 2.8 41.9 + - - +
1157A VAL* 3.7 22.7 - - + +
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Residues in contact with PHE1018 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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892A ILE* 3.4 44.2 - - + -
893A GLY 3.7 6.3 - - - -
894A HIS 3.7 21.1 - - - -
895A HIS* 3.4 43.5 - + + +
898A VAL* 4.1 13.2 - - + -
1014A LYS 2.9 14.1 + - - +
1015A GLY 3.3 6.3 - - - +
1016A MET 3.1 0.2 - - - -
1017A GLU* 1.3 75.3 - - - +
1019A LEU* 1.3 67.4 + - - +
1021A SER* 2.6 29.4 + - - -
1022A ARG* 3.2 22.5 + - + +
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Residues in contact with LEU1019 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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892A ILE* 3.8 40.8 - - + -
898A VAL* 4.1 15.0 - - + -
1015A GLY 2.8 19.1 + - - +
1016A MET* 3.2 32.3 + - + +
1018A PHE* 1.3 75.8 - - + +
1020A ALA* 1.3 62.8 + - - +
1022A ARG* 3.1 9.4 + - - -
1024A CYS* 3.0 37.3 + - + +
1025A ILE* 5.9 1.1 - - - -
1026A HIS* 4.6 7.4 - - + +
1044A ILE* 4.2 20.4 - - + -
3169A AV9 4.2 15.3 - - + -
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Residues in contact with ALA1020 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1016A MET 2.8 17.2 + - - +
1017A GLU* 3.6 8.1 - - - +
1019A LEU* 1.3 77.1 - - - +
1021A SER* 1.3 57.8 + - - +
1023A LYS* 2.9 21.0 + - - +
1024A CYS 3.7 10.5 + - - -
1084A ILE* 3.8 25.8 - - + +
1153A PHE* 5.1 2.9 - - + -
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Residues in contact with SER1021 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1017A GLU* 3.0 13.6 + - - -
1018A PHE* 2.6 29.8 + - - -
1020A ALA* 1.3 76.4 - - - +
1022A ARG* 1.3 66.7 + - - +
1023A LYS* 3.2 19.3 + - - -
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Residues in contact with ARG1022 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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813A LEU* 3.7 10.4 - - - +
891A HIS* 2.9 45.2 + - + -
892A ILE* 2.8 43.3 + - + +
1018A PHE* 3.3 30.7 - - + +
1019A LEU 3.1 8.3 + - - +
1021A SER* 1.3 83.4 + - - +
1023A LYS* 1.3 102.6 + - - +
1024A CYS* 3.3 11.4 + - - -
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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
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Atomic class I II III IV V VI VII VIII
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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