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Sodium in PDB 6fqs: 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna

Enzymatic activity of 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna

All present enzymatic activity of 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna:
5.99.1.3;

Protein crystallography data

The structure of 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna, PDB code: 6fqs was solved by B.D.Bax, T.Germe, E.Basque, A.Maxwell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.01 / 3.11
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 94.027, 94.027, 420.470, 90.00, 90.00, 120.00
R / Rfree (%) 17.9 / 21

Other elements in 6fqs:

The structure of 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna also contains other interesting chemical elements:

Fluorine (F) 3 atoms
Manganese (Mn) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna (pdb code 6fqs). 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 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna, PDB code: 6fqs:

Sodium binding site 1 out of 1 in 6fqs

Go back to Sodium Binding Sites List in 6fqs
Sodium binding site 1 out of 1 in the 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 3.11A Complex of S.Aureus Gyrase with Imidazopyrazinone T3 and Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na501

b:0.6
occ:1.00
 O A:HOH626 2.1 88.0 1.0
O A:GLN328 2.1 83.6 1.0
O A:THR325 2.2 92.3 1.0
O A:HOH614 2.3 83.3 1.0
O A:TYR322 2.5 85.0 1.0
C A:GLN328 3.3 69.1 1.0
C A:THR325 3.4 70.9 1.0
C A:TYR322 3.7 69.7 1.0
N A:GLN328 3.9 60.9 1.0
CA A:GLN328 3.9 63.7 1.0
CB A:GLN328 4.0 64.3 1.0
N A:THR325 4.1 71.3 1.0
O A:LYS323 4.2 67.2 1.0
N A:PRO326 4.3 69.0 1.0
CG A:GLN328 4.3 58.7 1.0
CA A:THR325 4.3 68.3 1.0
C A:LYS323 4.4 66.4 1.0
N A:THR329 4.4 60.2 1.0
CA A:PRO326 4.4 61.5 1.0
N A:LYS323 4.5 70.0 1.0
CA A:LYS323 4.6 65.9 1.0
C A:PRO326 4.6 65.8 1.0
N A:LEU327 4.6 67.8 1.0
CA A:THR329 4.6 58.8 1.0
CA A:TYR322 4.7 64.3 1.0
O A:HOH604 4.7 0.4 1.0
N A:GLN324 4.9 69.0 1.0
O A:LEU321 5.0 0.5 1.0

Reference:

T.Germe, J.Voros, F.Jeannot, T.Taillier, R.A.Stavenger, E.Bacque, A.Maxwell, B.D.Bax. A New Class of Antibacterials, the Imidazopyrazinones, Reveal Structural Transitions Involved in Dna Gyrase Poisoning and Mechanisms of Resistance. Nucleic Acids Res. V. 46 4114 2018.
ISSN: ESSN 1362-4962
PubMed: 29538767
DOI: 10.1093/NAR/GKY181
Page generated: Tue Dec 15 12:15:39 2020

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