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Magnesium in PDB 6k21: Pyrophosphatase From Acinetobacter Baumannii

Enzymatic activity of Pyrophosphatase From Acinetobacter Baumannii

All present enzymatic activity of Pyrophosphatase From Acinetobacter Baumannii:
3.6.1.1;

Protein crystallography data

The structure of Pyrophosphatase From Acinetobacter Baumannii, PDB code: 6k21 was solved by J.Su, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.90 / 2.00
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 102.813, 102.813, 100.776, 90.00, 90.00, 120.00
R / Rfree (%) 17.5 / 21.3

Other elements in 6k21:

The structure of Pyrophosphatase From Acinetobacter Baumannii also contains other interesting chemical elements:

Sodium (Na) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Pyrophosphatase From Acinetobacter Baumannii (pdb code 6k21). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Pyrophosphatase From Acinetobacter Baumannii, PDB code: 6k21:

Magnesium binding site 1 out of 1 in 6k21

Go back to Magnesium Binding Sites List in 6k21
Magnesium binding site 1 out of 1 in the Pyrophosphatase From Acinetobacter Baumannii


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pyrophosphatase From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:42.6
occ:1.00
OD2 A:ASP70 2.3 33.5 1.0
O A:HOH605 2.4 38.4 1.0
O A:HOH504 2.6 35.0 1.0
OD2 A:ASP65 2.6 47.5 1.0
O A:HOH513 2.7 34.0 1.0
CG A:ASP70 3.1 29.7 1.0
OD1 A:ASP70 3.2 34.2 1.0
CG A:ASP65 3.7 48.4 1.0
O A:HOH515 3.7 30.1 1.0
O A:HOH661 3.7 43.3 1.0
NZ A:LYS104 3.7 25.4 1.0
OD1 A:ASP65 4.0 44.0 1.0
O A:HOH581 4.1 25.4 1.0
OD1 A:ASP102 4.3 35.6 1.0
OH A:TYR55 4.4 37.5 1.0
CB A:ASP70 4.5 23.9 1.0
O A:HOH589 4.5 31.1 1.0
CB A:ASP67 4.6 35.8 1.0
O A:HOH643 4.7 45.0 1.0
OD2 A:ASP102 4.7 38.6 1.0
O A:PRO68 4.8 22.2 1.0
OD2 A:ASP67 4.8 45.4 1.0
CB A:ASP65 4.9 46.0 1.0
CG A:ASP102 4.9 38.8 1.0
O A:HOH633 5.0 44.8 1.0

Reference:

Y.Si, X.Wang, G.Yang, T.Yang, Y.Li, G.J.Ayala, X.Li, H.Wang, J.Su. Crystal Structures of Pyrophosphatase From Acinetobacter Baumannii: Snapshots of Pyrophosphate Binding and Identification of A Phosphorylated Enzyme Intermediate. Int J Mol Sci V. 20 2019.
ISSN: ESSN 1422-0067
PubMed: 31500178
DOI: 10.3390/IJMS20184394
Page generated: Wed Aug 13 10:11:28 2025

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