Contacts of the helix formed by residues 722 - 748 (chain O) in PDB entry 4UJ3
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 GLU 722 (chain O).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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720O LEU 3.2 6.4 - - - +
721O MET* 1.3 77.5 - - - +
723O ALA* 1.3 61.6 + - - +
724O ILE 3.3 2.2 - - - -
725O GLN* 3.4 21.2 + - + +
726O LYS* 3.7 8.5 + - - +
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Residues in contact with ALA 723 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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720O LEU* 3.8 15.7 + - - +
721O MET 3.3 0.8 - - - -
722O GLU* 1.3 77.9 - - - +
724O ILE* 1.3 60.1 + - - +
726O LYS* 3.5 6.5 + - - +
727O GLN* 3.1 26.9 + - - +
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Residues in contact with ILE 724 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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720O LEU 4.6 1.3 + - - +
721O MET* 3.8 13.3 + - - +
722O GLU 3.3 0.2 - - - -
723O ALA* 1.3 79.3 - - - +
725O GLN* 1.3 58.1 + - - +
727O GLN* 3.7 8.8 - - - +
728O GLU* 3.1 28.4 + - - +
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Residues in contact with GLN 725 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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721O MET 4.1 3.9 + - - +
722O GLU* 3.4 17.6 + - - +
723O ALA 3.2 0.6 - - - -
724O ILE* 1.3 81.1 - - - +
726O LYS* 1.3 59.3 + - - +
728O GLU* 3.8 5.5 + - - +
729O GLU* 3.4 18.7 + - - +
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Residues in contact with LYS 726 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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722O GLU 3.7 7.0 + - - +
723O ALA* 3.5 7.9 + - - +
725O GLN* 1.3 76.7 - - - +
727O GLN* 1.3 60.3 + - - +
728O GLU 3.2 0.4 - - - -
729O GLU* 3.3 9.1 + - - +
730O ILE* 3.1 35.6 + - + +
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Residues in contact with GLN 727 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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723O ALA 3.1 18.4 + - - +
724O ILE* 4.0 9.4 - - - +
725O GLN 3.4 0.2 - - - -
726O LYS* 1.3 78.2 - - - +
728O GLU* 1.3 58.6 + - - +
729O GLU 3.4 0.2 - - - -
730O ILE* 3.9 23.6 - - - +
731O ASN* 3.4 20.3 + - - +
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Residues in contact with GLU 728 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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724O ILE 3.1 17.4 + - - +
725O GLN* 4.0 6.1 - - - +
726O LYS 3.2 0.2 - - - -
727O GLN* 1.3 77.8 - - - +
729O GLU* 1.3 58.7 + - - +
730O ILE 3.3 0.4 - - - -
731O ASN* 3.6 7.8 + - - +
732O PHE* 3.2 25.5 + - - +
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Residues in contact with GLU 729 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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725O GLN 3.4 12.5 + - - +
726O LYS* 3.3 13.1 + - - +
728O GLU* 1.3 77.4 - - - +
730O ILE* 1.3 61.7 + - + +
732O PHE* 3.7 7.9 + - - +
733O ARG* 3.3 22.7 + - - +
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Residues in contact with ILE 730 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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726O LYS* 3.1 24.2 + - + +
727O GLN* 4.0 25.6 - - - +
729O GLU* 1.3 76.7 - - + +
731O ASN* 1.3 60.3 + - - +
733O ARG* 3.2 8.7 + - + +
734O LEU* 2.9 46.6 + - + +
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Residues in contact with ASN 731 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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727O GLN* 3.4 13.6 + - - +
728O GLU* 3.6 12.0 + - - +
730O ILE* 1.3 80.1 - - - +
732O PHE* 1.3 62.2 + - - +
734O LEU* 3.3 10.4 + - - +
735O GLN* 3.0 30.1 + - - +
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Residues in contact with PHE 732 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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728O GLU 3.2 14.4 + - - +
729O GLU* 3.8 8.5 - - - +
731O ASN* 1.3 76.2 - - - +
733O ARG* 1.3 58.8 + - - +
735O GLN* 3.3 6.8 + - - +
736O ASP* 3.0 30.4 + - - +
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Residues in contact with ARG 733 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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729O GLU 3.3 14.2 + - - +
730O ILE* 3.2 7.9 + - - +
732O PHE* 1.3 78.8 - - - +
734O LEU* 1.3 63.7 + - + +
736O ASP* 3.5 6.4 + - - +
737O TYR* 3.2 21.5 + - - +
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Residues in contact with LEU 734 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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730O ILE* 2.9 33.4 + - + +
731O ASN* 3.6 11.4 - - - +
733O ARG* 1.3 78.9 - - + +
735O GLN* 1.3 61.1 + - - +
737O TYR* 3.4 14.7 + - + +
738O ILE* 3.2 31.9 + - + +
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Residues in contact with GLN 735 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44M ILE* 4.7 19.9 - - - +
45M GLY 5.1 5.1 - - - +
731O ASN* 3.0 23.7 + - - +
732O PHE* 3.7 5.6 - - - +
734O LEU* 1.3 74.4 - - - +
736O ASP* 1.3 60.9 + - - +
738O ILE* 3.1 18.5 + - - +
739O ASP* 2.9 56.5 + - - +
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Residues in contact with ASP 736 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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732O PHE 3.0 16.1 + - - +
733O ARG* 3.9 7.2 - - - +
734O LEU 3.4 0.2 - - - -
735O GLN* 1.3 76.7 - - - +
737O TYR* 1.3 61.6 + - - +
739O ASP* 4.0 7.2 - - - +
740O ARG* 3.2 24.4 + - - +
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Residues in contact with TYR 737 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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733O ARG 3.2 12.8 + - - +
734O LEU* 3.5 20.2 - - + +
735O GLN 3.1 0.6 - - - -
736O ASP* 1.3 75.3 - - - +
738O ILE* 1.3 69.6 + - + +
740O ARG* 3.3 5.4 + - + +
741O ILE* 3.1 57.8 + - + +
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Residues in contact with ILE 738 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44M ILE* 5.3 16.8 - - + -
45M GLY* 4.4 24.7 - - - +
734O LEU* 3.2 20.9 - - + +
735O GLN* 3.1 19.6 + - - +
737O TYR* 1.3 82.6 - - + +
739O ASP* 1.3 68.9 + - - +
741O ILE* 3.6 4.8 + - - +
742O ILE* 3.2 27.4 + - + +
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Residues in contact with ASP 739 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45M GLY* 5.9 1.2 - - - -
75M ALA* 5.3 9.8 + - + +
76M ILE* 3.9 29.6 - - + +
735O GLN* 2.9 44.4 + - - +
736O ASP* 4.0 8.9 - - - +
738O ILE* 1.3 79.9 - - - +
740O ARG* 1.3 64.0 + - - +
742O ILE* 3.3 6.0 + - - +
743O VAL* 3.2 25.9 + - - +
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Residues in contact with ARG 740 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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736O ASP* 3.2 17.1 + - - +
737O TYR* 3.7 8.3 - - + +
739O ASP* 1.3 78.7 - - - +
741O ILE* 1.3 62.9 + - + +
743O VAL* 3.1 24.4 + - - +
744O ALA* 3.2 7.7 + - - +
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Residues in contact with ILE 741 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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737O TYR* 3.1 57.8 + - + +
738O ILE* 4.0 5.8 - - - +
740O ARG* 1.3 78.1 - - + +
742O ILE* 1.3 59.4 + - + +
744O ALA* 3.1 10.7 + - + +
745O ILE* 2.8 53.7 + - + +
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Residues in contact with ILE 742 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45M GLY* 3.4 15.9 - - - -
46M VAL* 3.1 43.7 - - + +
76M ILE* 4.0 15.0 - - + -
738O ILE* 3.2 21.3 + - + +
739O ASP* 3.3 4.5 + - - +
741O ILE* 1.3 79.4 - - + +
743O VAL* 1.3 64.0 + - - +
745O ILE* 3.2 10.1 + - + +
746O MET* 2.9 55.8 + - + +
753O LEU* 4.5 13.7 - - + -
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Residues in contact with VAL 743 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76M ILE* 3.1 38.6 - - + -
79M ALA* 5.6 7.3 - - + +
739O ASP 3.2 10.4 + - - +
740O ARG* 3.1 11.2 + - - +
742O ILE* 1.3 78.0 - - - +
744O ALA* 1.3 57.2 + - - +
746O MET* 3.4 7.0 + - - +
747O GLU* 3.0 27.7 + - + +
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Residues in contact with ALA 744 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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740O ARG 3.2 7.2 + - - +
741O ILE* 3.1 13.1 + - + +
743O VAL* 1.3 77.2 - - - +
745O ILE* 1.3 66.4 + - + +
747O GLU* 3.0 16.2 + - - +
748O THR* 3.2 22.9 + - + +
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Residues in contact with ILE 745 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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741O ILE* 2.8 44.4 + - + +
742O ILE* 3.2 11.2 + - + +
744O ALA* 1.3 77.3 - - + +
746O MET* 1.3 59.2 + - - +
748O THR* 4.7 2.9 - - - -
749O ASN 3.1 42.0 + - - +
750O PRO* 3.1 1.8 - - + -
752O ILE* 3.8 28.3 - - + -
753O LEU* 3.6 39.5 - - + -
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Residues in contact with MET 746 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13M LYS* 5.6 0.4 - - - -
46M VAL* 3.3 28.7 - - + -
65M TRP* 3.4 24.0 - - + -
76M ILE* 6.0 0.9 - - + +
79M ALA* 3.9 38.1 - - + +
80M TYR* 5.3 5.6 - - + +
82M ARG* 5.0 7.7 + - - +
742O ILE* 2.9 39.8 + - + +
743O VAL* 3.7 5.2 - - - +
745O ILE* 1.3 77.4 - - - +
747O GLU* 1.3 63.2 + - - +
748O THR* 3.2 2.1 + - - +
750O PRO* 3.9 19.6 - - - +
753O LEU* 3.2 26.5 - - + -
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Residues in contact with GLU 747 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82M ARG* 5.4 7.2 - - - +
743O VAL* 3.0 20.3 + - + +
744O ALA* 3.0 10.5 + - - +
746O MET* 1.3 76.9 - - - +
748O THR* 1.3 64.8 + - + +
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Residues in contact with THR 748 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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744O ALA* 3.2 17.7 + - + +
745O ILE* 4.1 2.4 + - - -
746O MET 3.2 1.1 - - - +
747O GLU* 1.3 89.0 - - + +
749O ASN* 1.3 80.8 + - - +
750O PRO* 3.5 10.1 - - - +
752O ILE* 5.8 1.0 - - - +
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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
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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