Contacts of the helix formed by residues 732 - 752 (chain A) in PDB entry 3U44
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 732 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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603A ARG* 4.9 15.3 - - - +
731A PRO* 1.3 72.6 - - - +
733A GLY* 1.3 56.9 + - - +
734A LYS* 3.0 12.7 + - - -
735A GLN* 3.2 11.4 + - - +
736A ARG* 3.1 25.0 + - - +
731B ARG* 5.3 0.6 - - - +
735B ARG* 5.4 9.0 - - - +
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Residues in contact with GLY 733 (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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727A VAL 3.2 16.2 - - - +
728A GLY* 3.8 10.4 - - - -
730A MET 2.7 19.5 + - - -
732A GLY* 1.3 76.4 - - - +
734A LYS* 1.3 58.1 - - - +
736A ARG* 3.7 7.0 - - - +
737A GLN* 3.0 34.7 + - - +
731B ARG* 5.3 3.0 - - - +
735B ARG* 6.0 0.8 - - - +
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Residues in contact with LYS 734 (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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728A GLY 6.1 0.2 - - - +
732A GLY* 3.0 2.6 + - - -
733A GLY* 1.3 76.9 - - - +
735A GLN* 1.3 65.6 + - - +
737A GLN* 3.5 8.6 + - - +
738A ALA* 3.2 21.0 + - - +
741A ARG* 4.7 2.6 + - - -
703B GLU* 3.0 39.9 + - - +
705B GLU* 4.1 8.2 + - - -
731B ARG* 6.5 0.9 - - + -
732B LEU* 4.8 8.1 - - + +
735B ARG* 4.1 29.2 - - - +
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Residues in contact with GLN 735 (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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610A TYR* 4.8 10.6 - - - -
611A ALA 4.8 8.7 - - - +
613A LEU* 5.0 25.6 + - + +
732A GLY* 3.2 10.5 + - - +
734A LYS* 1.3 75.5 - - - +
736A ARG* 1.3 60.7 + - + +
738A ALA* 3.4 12.1 + - - +
739A ASN* 2.9 65.3 + - - +
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Residues in contact with ARG 736 (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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621A VAL* 4.6 3.6 - - - +
622A GLU* 2.5 51.3 + - - +
727A VAL* 3.1 29.2 - - + +
730A MET* 3.7 24.2 - - - +
731A PRO* 2.7 28.1 + - - +
732A GLY* 3.1 14.1 + - - +
733A GLY* 3.7 5.8 - - - +
734A LYS 3.2 0.2 - - - -
735A GLN* 1.3 77.2 - - + +
737A GLN* 1.3 56.4 + - - +
739A ASN* 3.3 7.5 + - - +
740A LEU* 2.9 28.4 + - - +
1133B ASP* 2.8 29.7 + - - -
1135B SER* 3.5 13.1 + - - -
1136B LEU* 3.4 20.4 - - - +
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Residues in contact with GLN 737 (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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724A MET* 3.0 52.3 + - + +
725A ASP* 4.3 6.1 + - - +
727A VAL* 4.6 2.2 - - + -
728A GLY* 3.6 21.3 - - - +
733A GLY 3.0 19.1 + - - +
734A LYS* 3.8 8.2 - - - +
736A ARG* 1.3 72.5 - - - +
738A ALA* 1.3 66.4 + - - +
740A LEU* 3.0 9.7 + - - +
741A ARG* 2.9 31.3 + - - +
724B SER* 4.8 10.9 + - - -
728B SER* 5.1 8.3 - - - -
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Residues in contact with ALA 738 (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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734A LYS 3.2 11.0 + - - +
735A GLN* 3.5 20.6 - - - +
736A ARG 3.3 0.2 - - - -
737A GLN* 1.3 77.6 - - - +
739A ASN* 1.3 64.3 + - - +
741A ARG* 2.9 31.2 + - - +
742A VAL* 2.9 32.4 + - + +
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Residues in contact with ASN 739 (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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617A TYR* 2.9 53.2 + - + +
620A ALA* 4.4 11.7 - - - +
622A GLU* 3.9 15.1 + - + +
623A VAL* 4.2 9.9 - - + +
735A GLN* 2.9 57.2 + - - +
736A ARG* 3.4 7.0 - - - +
738A ALA* 1.3 74.1 - - - +
740A LEU* 1.3 60.7 + - - +
742A VAL* 3.0 12.2 - - - +
743A LEU* 3.4 0.5 + - - +
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Residues in contact with LEU 740 (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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622A GLU* 3.7 25.8 - - + -
623A VAL* 4.3 3.6 - - - +
626A ALA* 3.8 21.1 - - + -
718A TYR* 2.6 55.0 + - + +
723A TYR* 3.5 27.8 - - + -
724A MET* 3.7 30.5 - - + +
727A VAL* 4.0 11.7 - - + -
736A ARG 2.9 10.8 + - - +
737A GLN* 3.0 11.2 + - - +
739A ASN* 1.3 77.1 - - - +
741A ARG* 1.3 59.3 + - - +
743A LEU* 3.6 8.3 - - + +
744A TYR 3.9 0.9 + - - -
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Residues in contact with ARG 741 (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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718A TYR* 4.8 1.8 - - + -
724A MET* 3.7 23.4 - - + +
734A LYS 4.7 2.2 + - - -
737A GLN* 2.9 17.9 + - - +
738A ALA* 2.9 45.8 + - - +
740A LEU* 1.3 77.4 - - - +
742A VAL* 1.3 60.7 + - + +
743A LEU 3.3 1.6 - - - -
744A TYR* 3.6 11.1 + - + +
745A ASP* 3.2 30.3 + - - +
319B ASN* 4.6 15.5 - - - +
321B ARG* 4.0 35.9 + - - +
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Residues in contact with VAL 742 (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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617A TYR* 3.1 27.4 - - + +
738A ALA* 2.9 25.9 + - + +
739A ASN* 3.0 20.9 - - - +
741A ARG* 1.3 78.7 - - + +
743A LEU* 1.3 56.5 + - - +
744A TYR 3.1 0.2 - - - -
745A ASP* 3.5 11.4 - - + +
746A ARG* 2.7 53.0 + - + +
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Residues in contact with LEU 743 (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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617A TYR* 3.3 19.5 - - + +
623A VAL* 4.9 5.6 - - + +
626A ALA* 3.7 23.3 - - + -
627A LEU* 3.7 22.2 - - + +
630A LEU* 4.9 6.7 - - + -
714A ILE* 4.0 9.5 - - + +
718A TYR* 3.5 17.7 - - + +
739A ASN 3.4 2.4 + - - +
740A LEU* 3.6 12.3 - - + +
742A VAL* 1.3 83.4 - - - +
744A TYR* 1.3 61.5 + - - +
746A ARG* 3.5 5.9 + - + +
747A ALA* 3.1 21.7 + - - +
761A PHE* 4.2 4.3 - - + -
765A ILE* 3.5 33.0 - - + -
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Residues in contact with TYR 744 (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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711A SER* 3.1 43.3 + - - -
712A GLU* 5.1 0.4 - - - -
714A ILE* 4.1 23.3 - - + +
715A TRP* 4.2 27.7 - + + -
718A TYR* 4.7 4.0 - + + -
740A LEU 3.9 2.3 + - - +
741A ARG* 3.6 14.4 + - + +
742A VAL 3.1 0.4 - - - -
743A LEU* 1.3 79.7 - - - +
745A ASP* 1.3 63.7 + - - +
747A ALA* 3.2 5.0 + - - +
748A ARG* 3.0 46.6 + - + +
321B ARG* 3.3 43.1 - - - -
357B ASP* 4.6 10.9 - - - +
358B MET* 4.9 7.2 + - + +
361B GLU* 4.3 17.1 + - - +
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Residues in contact with ASP 745 (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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741A ARG* 3.2 14.1 + - - +
742A VAL* 3.1 14.9 + - + +
744A TYR* 1.3 82.9 - - - +
746A ARG* 1.3 57.7 + - + +
748A ARG* 3.0 14.9 + - - +
749A GLN* 2.9 36.7 + - + +
321B ARG* 2.5 36.2 + - - -
674B ALA* 3.5 32.4 - - + +
675B GLU* 6.3 0.2 - - - -
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Residues in contact with ARG 746 (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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614A THR 5.3 5.7 + - - -
617A TYR* 3.6 35.4 - - - +
618A PHE* 3.7 23.2 - - - -
742A VAL* 2.7 36.1 + - + +
743A LEU* 3.9 10.5 - - + +
745A ASP* 1.3 69.6 - - + +
747A ALA* 1.3 60.1 + - - +
749A GLN* 3.4 22.3 + - - +
750A TYR* 3.0 27.7 + - - +
761A PHE* 4.1 7.9 - - + -
764A PHE* 5.0 10.3 - - + -
765A ILE* 5.7 6.1 - - + -
768A MET* 3.8 26.9 - - - +
773A ASP 4.4 10.5 + - - -
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Residues in contact with ALA 747 (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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710A VAL* 4.0 7.0 - - + +
711A SER* 3.9 18.0 + - - -
714A ILE* 3.7 21.3 - - + -
743A LEU 3.1 14.7 + - - +
744A TYR 3.3 10.1 - - - +
745A ASP 3.2 0.2 - - - -
746A ARG* 1.3 77.0 - - - +
748A ARG* 1.3 62.2 + - - +
750A TYR* 3.1 14.8 + - - +
751A GLU* 3.2 13.5 + - - +
761A PHE* 3.4 20.3 - - + -
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Residues in contact with ARG 748 (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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711A SER* 3.9 14.8 - - - -
744A TYR* 3.0 43.7 + - + +
745A ASP* 3.0 17.9 + - - +
747A ALA* 1.3 71.8 - - - +
749A GLN* 1.3 63.2 + - + +
750A TYR 3.0 4.3 - - - -
751A GLU* 2.9 44.8 + - - +
752A SER* 3.9 3.5 + - - -
353B GLU 4.6 6.9 + - - -
354B ASP* 4.3 17.0 + - - +
357B ASP* 3.0 40.1 + - - +
358B MET* 6.2 1.8 - - - +
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Residues in contact with GLN 749 (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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134A ASP* 5.0 17.8 + - - +
137A GLU* 5.3 0.7 - - - +
745A ASP* 2.9 20.7 + - + +
746A ARG* 3.7 29.2 + - - +
748A ARG* 1.3 76.0 - - + +
750A TYR* 1.3 57.4 + - - +
752A SER* 2.9 22.8 + - - -
753A THR* 3.2 10.6 + - - -
764A PHE* 6.3 1.1 - - + -
675B GLU* 4.3 23.5 + - - +
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Residues in contact with TYR 750 (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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710A VAL* 4.6 9.9 - - + -
746A ARG 3.0 17.6 + - - +
747A ALA* 3.2 9.6 - - - +
748A ARG 3.0 0.6 - - - -
749A GLN* 1.3 76.9 - - - +
751A GLU* 1.3 68.4 + - + +
752A SER 3.2 0.7 - - - -
753A THR* 3.3 21.4 + - - -
755A PHE* 3.5 31.0 - + + +
756A ARG* 3.3 16.9 + - - -
757A GLY 2.9 27.3 + - - -
760A ARG* 3.0 16.4 - - - +
761A PHE* 2.9 50.2 + + + -
764A PHE* 4.0 31.9 - + + -
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Residues in contact with GLU 751 (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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709A SER* 4.4 18.6 + - - -
711A SER* 4.5 7.9 + - - -
747A ALA 3.2 8.3 + - - +
748A ARG* 2.9 55.7 + - - +
750A TYR* 1.3 83.6 - - + +
752A SER* 1.3 61.9 + - - +
753A THR 3.2 6.7 + - - +
755A PHE 4.5 6.3 - - - +
756A ARG* 6.3 0.2 - - - +
357B ASP* 4.3 6.6 - - - +
380B ASN* 5.1 3.1 + - - -
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Residues in contact with SER 752 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A ARG* 3.3 32.6 + - - -
137A GLU* 5.5 0.3 + - - -
748A ARG 4.6 3.1 - - - -
749A GLN* 2.9 25.8 + - - -
751A GLU* 1.3 78.8 - - - +
753A THR* 1.3 64.8 + - - +
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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