Contacts of the helix formed by residues 720 - 749 (chain C) 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 LEU 720 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721C MET* 1.3 71.8 + - + +
722C GLU* 3.3 14.6 + - - +
723C ALA* 3.6 21.7 + - - +
724C ILE* 4.2 8.3 + - - +
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Residues in contact with MET 721 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720C LEU* 1.3 79.8 - - + +
722C GLU* 1.3 68.0 + - - +
723C ALA 3.2 2.2 - - - -
724C ILE* 3.2 54.4 - - + +
725C GLN* 3.7 5.9 + - - +
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Residues in contact with GLU 722 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720C LEU 3.3 11.6 + - - +
721C MET* 1.3 89.0 + - - +
723C ALA* 1.3 61.9 + - - +
724C ILE 3.4 0.2 - - - -
725C GLN* 3.9 7.2 - - - +
726C LYS* 3.4 22.7 + - - +
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Residues in contact with ALA 723 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720C LEU* 3.6 16.0 + - - +
721C MET 3.2 0.6 - - - -
722C GLU* 1.3 79.4 - - - +
724C ILE* 1.3 59.7 + - + +
726C LYS* 3.7 4.4 + - - +
727C GLN* 2.9 31.2 + - - +
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Residues in contact with ILE 724 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720C LEU 4.6 5.8 - - - +
721C MET* 3.2 47.8 - - + +
723C ALA* 1.3 77.3 - - + +
725C GLN* 1.3 69.6 + - + +
727C GLN* 3.7 8.5 - - + -
728C GLU* 3.0 28.2 + - - +
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Residues in contact with GLN 725 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721C MET 3.7 13.1 + - - +
722C GLU* 4.0 7.6 - - - +
723C ALA 3.3 0.6 - - - -
724C ILE* 1.3 88.9 - - + +
726C LYS* 1.3 59.9 + - - +
728C GLU* 3.7 5.7 + - - +
729C GLU* 3.5 18.2 + - - +
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Residues in contact with LYS 726 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722C GLU 3.4 14.5 + - - +
723C ALA* 4.2 3.4 - - - +
725C GLN* 1.3 78.5 - - - +
727C GLN* 1.3 61.9 + - - +
728C GLU 3.3 0.4 - - - -
729C GLU* 3.4 8.3 + - - +
730C ILE* 3.3 31.1 + - + +
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Residues in contact with GLN 727 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723C ALA 2.9 21.7 + - - +
724C ILE* 4.0 10.1 - - + +
725C GLN 3.3 0.2 - - - -
726C LYS* 1.3 78.8 - - - +
728C GLU* 1.3 55.9 + - - +
729C GLU 3.4 0.4 - - - -
730C ILE* 3.6 28.1 + - - +
731C ASN* 3.3 34.9 + - - +
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Residues in contact with GLU 728 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
724C ILE 3.0 19.6 + - - +
725C GLN* 3.9 7.2 - - - +
726C LYS 3.3 0.2 - - - -
727C GLN* 1.3 76.4 - - - +
729C GLU* 1.3 59.3 + - - +
730C ILE 3.2 0.4 - - - -
731C ASN* 3.9 7.8 - - - +
732C PHE* 3.1 25.8 + - - +
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Residues in contact with GLU 729 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725C GLN 3.5 11.1 + - - +
726C LYS* 3.4 12.9 + - - +
727C GLN 3.4 0.2 - - - -
728C GLU* 1.3 76.7 - - - +
730C ILE* 1.3 63.4 + - - +
732C PHE* 3.7 7.0 + - - +
733C ARG* 3.2 29.6 + - - +
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Residues in contact with ILE 730 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726C LYS* 3.3 16.5 + - + +
727C GLN* 3.7 32.3 - - - +
728C GLU 3.2 0.2 - - - -
729C GLU* 1.3 76.2 - - - +
731C ASN* 1.3 63.6 + - - +
733C ARG* 3.1 17.4 + - + +
734C LEU* 2.9 40.6 + - + +
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Residues in contact with ASN 731 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
727C GLN* 3.3 25.0 + - - +
728C GLU* 3.9 8.7 - - - +
730C ILE* 1.3 79.7 - - - +
732C PHE* 1.3 64.3 - - - +
734C LEU* 3.3 11.6 + - - +
735C GLN* 2.9 27.8 + - - +
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Residues in contact with PHE 732 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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728C GLU 3.1 18.7 + - - +
729C GLU* 3.8 9.2 - - - +
731C ASN* 1.3 76.4 - - - +
733C ARG* 1.3 59.3 + - + +
735C GLN* 3.4 4.1 + - - +
736C ASP* 2.9 31.2 + - - +
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Residues in contact with ARG 733 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729C GLU* 3.2 15.4 + - - +
730C ILE* 3.1 18.5 + - - +
732C PHE* 1.3 79.5 - - + +
734C LEU* 1.3 65.5 + - + +
736C ASP* 3.5 5.9 + - - +
737C TYR* 3.2 22.0 + - - +
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Residues in contact with LEU 734 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730C ILE* 2.9 31.0 + - + +
731C ASN* 3.8 12.1 - - - +
733C ARG* 1.3 76.6 - - + +
735C GLN* 1.3 59.0 + - - +
737C TYR* 3.2 13.2 - - + +
738C ILE* 3.0 35.2 + - + +
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Residues in contact with GLN 735 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A ILE* 5.3 10.7 - - - +
45A GLY 5.0 8.7 - - - +
731C ASN 2.9 17.5 + - - +
732C PHE* 3.9 4.0 - - - +
734C LEU* 1.3 74.2 - - - +
736C ASP* 1.3 64.6 + - - +
737C TYR 3.1 1.8 - - - -
738C ILE* 3.3 21.8 + - - +
739C ASP* 3.1 46.8 + - - +
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Residues in contact with ASP 736 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
732C PHE 2.9 19.9 + - - +
733C ARG* 3.9 6.5 - - - +
734C LEU 3.4 0.4 - - - -
735C GLN* 1.3 76.2 - - - +
737C TYR* 1.3 58.9 + - - +
739C ASP* 3.6 7.1 + - - +
740C ARG* 3.0 34.1 + - - +
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Residues in contact with TYR 737 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
733C ARG 3.2 13.3 + - - +
734C LEU* 3.2 19.1 - - + +
735C GLN 3.1 0.6 - - - -
736C ASP* 1.3 74.3 - - - +
738C ILE* 1.3 75.3 + - + +
739C ASP 3.1 0.2 - - - -
740C ARG* 3.2 26.0 + - - +
741C ILE* 3.1 55.8 + - + +
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Residues in contact with ILE 738 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44A ILE* 5.3 16.2 - - + -
45A GLY* 4.2 12.1 - - - +
734C LEU* 3.0 20.0 + - + +
735C GLN* 3.3 22.4 + - - +
737C TYR* 1.3 82.0 - - + +
739C ASP* 1.3 67.0 + - - +
741C ILE* 3.2 9.6 - - + +
742C ILE* 3.0 45.4 + - + +
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Residues in contact with ASP 739 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ARG* 3.6 26.0 - - - +
76A ILE* 3.8 22.6 - - + +
735C GLN* 3.1 34.6 + - - +
736C ASP* 3.7 7.7 - - - +
737C TYR 3.1 0.2 - - - -
738C ILE* 1.3 79.2 - - - +
740C ARG* 1.3 64.3 + - + +
742C ILE* 3.2 1.2 + - - -
743C VAL* 2.9 30.3 + - + +
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Residues in contact with ARG 740 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736C ASP* 3.0 20.0 - - + +
737C TYR* 3.2 30.7 + - - +
739C ASP* 1.3 78.0 - - + +
741C ILE* 1.3 66.8 + - - +
743C VAL* 3.3 8.7 + - - +
744C ALA* 3.0 26.9 + - - +
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Residues in contact with ILE 741 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737C TYR* 3.1 42.5 + - + +
738C ILE* 3.2 19.7 - - + +
740C ARG* 1.3 81.0 - - - +
742C ILE* 1.3 70.1 + - + +
744C ALA* 3.2 8.1 + - + +
745C ILE* 2.8 50.9 + - + +
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Residues in contact with ILE 742 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A GLY* 3.3 35.0 - - - -
46A VAL* 3.3 23.6 - - + +
76A ILE* 3.2 24.9 - - + -
738C ILE* 3.0 29.6 + - + +
741C ILE* 1.3 83.2 - - + +
743C VAL* 1.3 62.8 + - - +
745C ILE* 3.2 10.3 + - + +
746C MET* 3.1 33.0 + - + +
753C LEU* 4.5 16.8 - - + -
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Residues in contact with VAL 743 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A ALA 5.4 1.6 - - - +
76A ILE* 3.3 28.9 - - + -
79A ALA* 5.4 7.8 - - + +
739C ASP* 2.9 29.6 + - + +
740C ARG* 3.4 9.4 - - - +
742C ILE* 1.3 77.4 - - - +
744C ALA* 1.3 63.7 + - - +
746C MET* 3.3 10.9 + - + +
747C GLU* 3.1 23.0 + - + +
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Residues in contact with ALA 744 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
740C ARG 3.0 13.6 + - - +
741C ILE* 3.2 12.5 + - + +
743C VAL* 1.3 78.0 - - - +
745C ILE* 1.3 63.8 + - + +
747C GLU* 3.0 16.5 + - - +
748C THR* 3.2 21.0 + - + +
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Residues in contact with ILE 745 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741C ILE* 2.8 45.9 + - + +
742C ILE* 3.2 11.2 + - + +
744C ALA* 1.3 76.1 - - + +
746C MET* 1.3 57.4 + - - +
748C THR* 4.5 4.0 - - - -
749C ASN 2.9 45.7 + - - +
750C PRO* 4.5 0.4 - - + -
752C ILE* 3.7 35.2 - - + -
753C LEU* 4.0 30.1 - - + -
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Residues in contact with MET 746 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A VAL* 4.7 6.3 - - + -
65A TRP* 3.6 31.4 - - + -
76A ILE* 4.1 14.6 - - + +
79A ALA* 3.1 49.1 - - + +
80A TYR* 4.5 2.9 - - - +
82A ARG* 5.7 3.6 + - - +
742C ILE* 3.1 30.7 + - + +
743C VAL* 3.8 4.9 - - - +
745C ILE* 1.3 73.0 - - - +
747C GLU* 1.3 62.2 + - - +
748C THR 3.1 6.0 + - - -
750C PRO* 3.5 22.8 - - + +
753C LEU* 3.6 21.3 - - + -
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Residues in contact with GLU 747 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ARG* 5.6 8.7 - - - +
743C VAL* 3.1 14.7 + - + +
744C ALA* 3.0 13.3 + - - +
746C MET* 1.3 76.8 - - - +
748C THR* 1.3 64.2 + - + +
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Residues in contact with THR 748 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
744C ALA* 3.2 16.1 + - + +
745C ILE* 3.8 5.9 + - - -
746C MET 3.1 2.6 - - - -
747C GLU* 1.3 87.7 - - + +
749C ASN* 1.3 95.0 + - - +
750C PRO* 3.3 10.7 - - - +
752C ILE* 5.9 0.7 - - - +
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Residues in contact with ASN 749 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745C ILE* 2.9 13.1 + - - +
748C THR* 1.3 103.4 + - - +
750C PRO* 1.3 58.2 - - - +
751C SER* 2.9 17.0 + - - +
752C ILE* 3.2 32.0 + - + +
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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