Contacts of the helix formed by residues 730 - 751 (chain A) in PDB entry 6O0Z
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 SER 730 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A THR* 5.2 3.8 - - - +
728A ALA 4.8 0.2 - - - +
729A GLY* 1.3 76.0 - - - +
731A PRO* 1.3 74.8 - - - +
732A ALA* 3.1 23.3 + - - +
733A ILE* 3.4 21.3 + - - +
734A LYS* 3.4 15.1 + - - +
11B G 5.5 2.3 + - - -
12B A 5.5 7.2 - - - -
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Residues in contact with PRO 731 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A GLY* 5.0 3.6 - - - -
57A GLU 4.3 24.0 - - - +
58A THR* 4.4 20.4 - - + -
729A GLY 4.2 3.4 - - - +
730A SER* 1.3 87.9 - - - +
732A ALA* 1.3 56.9 + - - +
733A ILE 3.1 0.2 - - - -
734A LYS* 3.0 17.9 + - + +
735A LYS* 3.0 31.7 + - - +
12B A 5.2 9.4 - - - +
13B U 5.1 5.6 - - - +
64B U 5.6 2.0 - - - +
65B A 5.2 11.9 - - - -
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Residues in contact with ALA 732 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A GLY 4.6 0.3 - - - +
13A THR* 3.4 40.2 + - - +
55A SER* 5.5 2.2 - - - -
56A GLY* 4.5 25.6 - - - +
730A SER* 3.1 15.7 + - - +
731A PRO* 1.3 78.6 - - - +
733A ILE* 1.3 62.8 + - + +
735A LYS* 4.5 2.8 - - - +
736A GLY 4.1 8.5 + - - -
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Residues in contact with ILE 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ILE* 5.3 3.7 - - + +
12A GLY 5.4 4.0 - - - +
13A THR* 4.7 15.7 - - - +
729A GLY 5.9 0.2 - - - -
730A SER* 3.4 22.6 + - - +
731A PRO 3.1 0.8 - - - -
732A ALA* 1.3 82.1 - - + +
734A LYS* 1.3 61.3 + - + +
735A LYS 3.3 0.7 - - - -
736A GLY* 3.2 3.9 + - - -
737A ILE* 3.0 38.9 + - + +
763A MET* 3.9 29.4 - - + -
764A ALA 6.1 1.1 - - - +
927A ILE* 4.4 20.2 - - + -
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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
----------------------------------------------------------
724A ILE* 4.0 28.5 - - + +
725A ALA* 4.1 14.4 + - - +
727A LEU* 3.5 26.8 + - + -
728A ALA 3.7 17.5 - - - +
729A GLY 3.5 24.1 + - - -
730A SER 3.4 10.1 - - - +
731A PRO* 3.0 17.1 + - + +
733A ILE* 1.3 75.0 - - + +
735A LYS* 1.3 64.6 + - - +
737A ILE* 3.3 13.6 + - + +
738A LEU* 3.0 24.9 + - - +
12B A 5.8 1.8 + - - -
66B U 5.4 0.2 - - - -
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Residues in contact with LYS 735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A PHE* 4.3 18.8 - - + -
54A ASP* 3.8 24.9 + - - +
55A SER 4.7 4.6 + - - -
56A GLY* 4.5 14.9 - - - +
731A PRO 3.0 14.7 + - - +
732A ALA* 4.5 6.7 - - - +
733A ILE 3.3 0.2 - - - -
734A LYS* 1.3 76.3 - - - +
736A GLY* 1.3 55.9 + - - +
738A LEU* 3.4 3.4 + - - +
739A GLN* 3.0 41.3 + - + +
1097A LYS* 4.2 13.4 - - - +
1099A GLU* 3.1 28.9 + - - -
65B A 5.4 3.7 + - - +
66B U 3.8 40.1 + - - +
67B C 5.5 0.9 - - - -
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Residues in contact with GLY 736 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ILE* 4.6 6.1 - - - -
12A GLY 4.5 10.5 - - - -
16A VAL* 3.9 8.0 - - - +
53A PHE* 4.0 20.0 - - - -
732A ALA 4.1 3.2 + - - -
733A ILE 3.2 8.5 + - - -
735A LYS* 1.3 79.5 - - - +
737A ILE* 1.3 52.6 + - - +
739A GLN* 3.8 1.8 - - - +
740A THR* 2.3 39.7 + - - -
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Residues in contact with ILE 737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ILE* 5.3 4.0 - - + -
724A ILE* 4.3 21.1 - - + -
727A LEU* 4.5 19.1 - - + -
733A ILE* 3.0 28.7 + - + +
734A LYS* 3.6 12.8 - - + +
735A LYS 3.3 0.4 - - - -
736A GLY* 1.3 76.4 - - - +
738A LEU* 1.3 63.1 + - - +
740A THR* 3.1 9.1 + - - -
741A VAL* 3.0 27.9 + - + +
763A MET* 5.0 5.6 - - + -
927A ILE* 4.1 25.4 - - + +
931A VAL* 4.1 32.1 - - + -
934A ILE* 5.8 5.8 - - + -
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Residues in contact with LEU 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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720A LEU* 4.0 20.4 - - + -
721A HIS* 4.9 14.1 - - + -
724A ILE* 3.8 26.7 - - + +
734A LYS 3.0 16.5 + - - +
735A LYS* 3.8 4.9 - - - +
737A ILE* 1.3 76.4 - - - +
739A GLN* 1.3 69.7 + - - +
741A VAL* 3.3 3.4 + - - +
742A LYS* 3.1 32.5 + - + +
66B U 3.8 45.8 - - - +
67B C 4.4 4.9 - - - +
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Residues in contact with GLN 739 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A VAL* 4.6 4.3 - - + -
51A LEU* 4.2 15.9 - - + +
53A PHE* 4.1 24.7 - - + -
735A LYS* 3.0 28.1 + - + +
736A GLY 3.9 3.8 - - - +
737A ILE 3.3 0.2 - - - -
738A LEU* 1.3 86.7 - - - +
740A THR* 1.3 56.8 + - - +
742A LYS* 3.4 11.4 + - - +
743A VAL* 2.9 32.5 + - - +
1097A LYS* 4.2 18.1 - - + +
1352A ILE* 3.7 24.8 - - - +
66B U 5.0 0.4 + - - -
67B C 3.7 29.8 + - - -
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Residues in contact with THR 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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9A LEU* 3.8 32.3 - - + -
11A ILE* 3.5 33.9 - - + +
16A VAL* 4.0 7.8 - - + +
736A GLY 2.3 28.7 + - - -
737A ILE* 3.1 7.2 + - - -
739A GLN* 1.3 74.5 - - - +
741A VAL* 1.3 67.3 + - - +
743A VAL* 3.2 8.9 - - - +
744A VAL* 3.0 25.4 + - + +
761A ILE* 5.3 0.2 - - + -
931A VAL* 5.6 4.0 - - + -
935A LEU* 5.1 8.3 - - + -
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Residues in contact with VAL 741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720A LEU* 3.9 25.8 - - + -
724A ILE* 5.1 1.1 - - + -
737A ILE* 3.0 21.2 + - + +
738A LEU* 3.7 9.0 - - - +
740A THR* 1.3 76.0 - - - +
742A LYS* 1.3 62.6 + - - +
744A VAL* 3.4 6.4 + - - +
745A ASP* 3.1 26.7 + - - +
931A VAL* 5.8 3.1 - - + -
934A ILE* 4.4 22.0 - - + -
935A LEU* 5.0 15.0 - - + -
938A ARG* 3.7 31.6 - - - +
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Residues in contact with LYS 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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720A LEU* 5.9 2.2 - - + -
738A LEU* 3.1 28.4 + - + +
739A GLN* 3.7 20.9 - - - +
740A THR 3.3 0.2 - - - -
741A VAL* 1.3 78.4 - - + +
743A VAL* 1.3 56.7 + - - +
745A ASP* 3.4 6.5 + - - +
746A GLU* 3.0 27.9 + - - +
1352A ILE* 4.8 17.2 - - + +
66B U 4.4 0.4 + - - -
67B C 2.4 48.4 + - - +
68B A 4.6 10.1 + - - +
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Residues in contact with VAL 743 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A LEU* 4.4 12.6 - - + -
16A VAL* 4.4 15.5 - - + -
18A TRP* 4.0 26.9 - - + +
51A LEU* 5.9 4.9 - - + -
739A GLN 2.9 18.4 + - - +
740A THR* 3.2 20.4 - - - +
742A LYS* 1.3 74.8 - - - +
744A VAL* 1.3 60.6 + - - +
746A GLU* 3.8 4.8 - - - +
747A LEU* 2.9 33.0 + - + +
1352A ILE* 4.8 12.1 - - + +
1353A THR* 3.7 24.9 - - + -
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Residues in contact with VAL 744 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A ILE* 5.1 10.5 - - + +
9A LEU* 3.7 31.0 - - + -
740A THR* 3.0 22.5 + - + +
741A VAL 3.7 4.5 - - - +
743A VAL* 1.3 76.8 - - - +
745A ASP* 1.3 60.5 + - - +
747A LEU* 3.3 6.4 + - + +
748A VAL* 3.0 32.6 + - + +
759A ILE* 4.5 12.3 - - + -
935A LEU* 4.1 26.9 - - + -
939A MET* 4.3 20.2 - - - -
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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 VAL* 3.1 21.6 + - - +
742A LYS* 3.8 6.6 - - - +
744A VAL* 1.3 81.6 - - - +
746A GLU* 1.3 57.8 + - - +
748A VAL* 3.4 8.7 + - - +
749A LYS* 3.0 27.4 + - - +
938A ARG* 2.4 37.6 + - - +
939A MET* 4.9 8.3 - - - +
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Residues in contact with GLU 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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742A LYS 3.0 16.8 + - - +
743A VAL 3.8 4.9 - - - +
744A VAL 3.3 0.2 - - - -
745A ASP* 1.3 77.9 - - - +
747A LEU* 1.3 56.5 + - + +
749A LYS* 3.1 24.7 + - - +
750A VAL* 3.0 27.0 + - + +
1351A SER* 4.8 5.1 + - - -
1352A ILE* 3.7 21.4 - - + +
1353A THR* 3.7 24.9 + - + +
1355A LEU* 6.3 0.4 - - + -
1356A TYR* 3.2 36.3 - - - -
68B A 5.7 0.7 + - - -
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Residues in contact with LEU 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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5A TYR* 4.4 2.1 + - + -
7A ILE* 4.4 24.0 - - + -
9A LEU* 5.9 0.7 - - + -
18A TRP* 3.6 52.5 - - + -
20A VAL* 3.8 23.8 - - + -
47A LEU* 5.5 2.7 - - + -
743A VAL* 2.9 25.0 + - + +
744A VAL* 3.8 4.9 - - - +
746A GLU* 1.3 75.3 - - - +
748A VAL* 1.3 64.6 + - - +
750A VAL* 3.3 31.4 + - + +
751A MET* 3.5 14.9 - - - +
1353A THR* 4.8 4.9 - - + -
1355A LEU* 4.7 7.9 - - + -
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Residues in contact with VAL 748 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A TYR* 4.2 7.0 - - - +
7A ILE* 4.9 4.7 - - + -
744A VAL* 3.0 24.3 + - + +
745A ASP* 3.7 8.1 - - - +
747A LEU* 1.3 78.4 - - - +
749A LYS* 1.3 62.4 + - - +
750A VAL 3.4 0.3 + - - -
751A MET* 3.6 4.3 + - - -
753A ARG* 3.5 22.7 + - - -
754A HIS 4.1 16.0 + - - +
755A LYS* 4.5 16.4 - - + -
756A PRO* 4.0 26.5 - - + -
939A MET* 4.4 16.2 - - + -
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Residues in contact with LYS 749 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745A ASP 3.0 14.1 + - - +
746A GLU* 3.1 31.4 + - - +
748A VAL* 1.3 79.4 - - - +
750A VAL* 1.3 62.0 + - - +
751A MET 3.4 0.7 + - - -
752A GLY* 3.6 8.3 + - - -
753A ARG* 4.0 36.2 + - - +
1356A TYR* 4.8 11.4 + - + +
80B U 4.1 33.3 + - - -
81B G 4.1 27.2 + - - -
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Residues in contact with VAL 750 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A LYS* 4.5 10.1 + - + +
32A PHE* 3.6 33.9 - - + -
47A LEU* 5.3 4.9 - - + -
746A GLU* 3.0 10.8 + - + +
747A LEU* 3.3 39.7 - - + +
749A LYS* 1.3 78.2 - - - +
751A MET* 1.3 66.0 + - + +
752A GLY 3.2 4.9 + - - -
1355A LEU* 4.5 10.8 - - + -
1356A TYR* 3.8 27.9 + - + +
83B C 5.0 4.7 + - - -
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Residues in contact with MET 751 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A LYS 5.6 1.3 - - - +
5A TYR* 3.7 58.7 - - + +
20A VAL* 4.5 12.8 - - + -
28A PRO* 5.3 6.3 - - + -
30A LYS* 3.6 26.2 - - - +
47A LEU* 4.1 18.8 - - + -
747A LEU* 3.5 16.2 + - + +
748A VAL 3.6 2.2 + - - +
749A LYS 3.3 1.4 - - - -
750A VAL* 1.3 81.9 - - + +
752A GLY* 1.3 60.1 + - - +
753A ARG 3.6 1.1 - - - -
754A HIS* 3.5 15.3 + - - +
83B C 5.8 2.0 - - - -
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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