Magnesium in PDB 8bji: Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion

Enzymatic activity of Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion

All present enzymatic activity of Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion:
4.6.1.1;

Protein crystallography data

The structure of Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion, PDB code: 8bji was solved by M.Teixeira-Nunes, L.Renault, P.Retailleau, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.06 / 1.75
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 81.974, 62.854, 93.588, 90, 90.28, 90
R / Rfree (%) 17.5 / 21.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion (pdb code 8bji). 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 Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion, PDB code: 8bji:

Magnesium binding site 1 out of 1 in 8bji

Go back to Magnesium Binding Sites List in 8bji
Magnesium binding site 1 out of 1 in the Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Chimera of Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Adp-Mg-Actin and A Sulfate Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:18.6
occ:1.00
 O2B A:ADP401 2.0 17.5 1.0
O A:HOH546 2.1 14.3 1.0
O A:HOH675 2.1 14.8 1.0
O A:HOH582 2.1 14.9 1.0
O A:HOH644 2.1 15.2 1.0
O A:HOH522 2.2 12.7 1.0
PB A:ADP401 3.3 17.6 1.0
O3B A:ADP401 3.6 18.0 1.0
O A:HOH738 3.9 22.3 1.0
O A:HOH527 4.0 18.2 1.0
O2A A:ADP401 4.0 17.2 1.0
O3A A:ADP401 4.1 17.3 1.0
O A:HOH660 4.2 16.2 1.0
OE1 A:GLN137 4.2 16.2 1.0
OD1 A:ASP154 4.2 19.5 1.0
NZ A:LYS18 4.2 16.4 1.0
OD2 A:ASP11 4.3 13.6 1.0
OD2 A:ASP154 4.3 19.5 1.0
O1B A:ADP401 4.4 17.5 1.0
OD1 A:ASP11 4.5 14.4 1.0
PA A:ADP401 4.5 17.4 1.0
CA A:GLY13 4.6 17.5 1.0
CD A:GLN137 4.6 15.7 1.0
CG2 A:VAL339 4.7 14.2 1.0
CG A:ASP154 4.7 17.5 1.0
CG A:ASP11 4.8 14.1 1.0
CE A:LYS18 4.9 18.5 1.0
CA A:GLY156 5.0 17.2 1.0
O1A A:ADP401 5.0 15.8 1.0

Reference:

M.Teixeira-Nunes, P.Retailleau, D.Raoux-Barbot, M.Comisso, A.A.Missinou, C.Velours, S.Plancqueel, D.Ladant, U.Mechold, L.Renault. Functional and Structural Insights Into the Multi-Step Activation and Catalytic Mechanism of Bacterial Exoy Nucleotidyl Cyclase Toxins Bound to Actin-Profilin Plos Pathog. 2023.
ISSN: ESSN 1553-7374
DOI: 10.1371/JOURNAL.PPAT.1011654
Page generated: Thu Oct 3 19:42:22 2024

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