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Sodium in PDB 6eng: Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin

Enzymatic activity of Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin

All present enzymatic activity of Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin:
5.99.1.3;

Protein crystallography data

The structure of Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin, PDB code: 6eng was solved by A.Vanden Broeck, A.G.Mcewen, V.Lamour, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.67 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.830, 128.070, 159.760, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 25.7

Other elements in 6eng:

The structure of Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin also contains other interesting chemical elements:

Potassium (K) 3 atoms
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin (pdb code 6eng). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin, PDB code: 6eng:

Sodium binding site 1 out of 1 in 6eng

Go back to Sodium Binding Sites List in 6eng
Sodium binding site 1 out of 1 in the Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the 43K Atpase Domain of Escherichia Coli Gyrase B in Complex with An Aminocoumarin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na405

b:43.9
occ:1.00
 O A:HOH695 2.3 57.7 1.0
O A:PRO274 2.8 54.0 1.0
O A:THR336 2.9 60.9 1.0
O A:LYS337 3.0 57.6 1.0
OD1 A:ASP338 3.1 69.0 1.0
C A:LYS337 3.5 58.3 1.0
CG2 A:ILE273 3.7 47.4 1.0
C A:THR336 4.0 63.1 1.0
C A:PRO274 4.0 51.0 1.0
N A:ASP338 4.0 54.8 1.0
CG A:ASP338 4.1 67.9 1.0
CB A:LYS337 4.1 59.2 1.0
CA A:LYS337 4.2 57.0 1.0
CA A:ASP338 4.3 53.8 1.0
N A:LYS337 4.6 58.9 1.0
CG A:PRO274 4.6 47.0 1.0
N A:PRO274 4.6 43.8 1.0
CD A:PRO274 4.7 43.5 1.0
CA A:PRO274 4.8 42.7 1.0
CB A:ASP338 4.8 56.2 1.0
NE2 A:GLN275 4.8 42.1 1.0
OD2 A:ASP338 4.9 74.5 1.0

Reference:

A.Vanden Broeck, A.G.Mcewen, Y.Chebaro, N.Potier, V.Lamour. Structural Basis For Dna Gyrase Interaction with Coumermycin A1. J.Med.Chem. V. 62 4225 2019.
ISSN: ISSN 0022-2623
PubMed: 30920824
DOI: 10.1021/ACS.JMEDCHEM.8B01928
Page generated: Tue Oct 8 08:26:50 2024

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