Magnesium in PDB 8bjh: Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin

Enzymatic activity of Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin

All present enzymatic activity of Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin:
4.6.1.1;

Protein crystallography data

The structure of Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin, PDB code: 8bjh 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) 93.57 / 1.69
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 81.739, 62.825, 93.581, 90, 91.03, 90
R / Rfree (%) 17.8 / 21.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin (pdb code 8bjh). 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 the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin, PDB code: 8bjh:

Magnesium binding site 1 out of 1 in 8bjh

Go back to Magnesium Binding Sites List in 8bjh
Magnesium binding site 1 out of 1 in the Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Chimera of the Inactive Exoy Nucleotidyl Cyclase Domain From Vibrio Nigripulchritudo Martx Toxin, with the Double Mutation K3528M and K3535I, Fused to A Proline-Rich-Domain (Prd) and Profilin, Bound to Latrunculin B-Adp-Mg-Actin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:20.2
occ:1.00
 O2B A:ADP401 2.0 18.9 1.0
O A:HOH574 2.0 19.2 1.0
O A:HOH624 2.1 19.2 1.0
O A:HOH597 2.1 20.2 1.0
O A:HOH670 2.1 17.2 1.0
O A:HOH545 2.1 19.8 1.0
PB A:ADP401 3.3 19.4 1.0
O3B A:ADP401 3.7 19.6 1.0
O A:HOH767 4.0 30.5 1.0
O A:HOH589 4.0 21.5 1.0
O2A A:ADP401 4.0 19.6 1.0
O3A A:ADP401 4.0 19.2 1.0
NZ A:LYS18 4.2 18.9 1.0
O A:HOH683 4.2 22.6 1.0
OE1 A:GLN137 4.2 19.6 1.0
OD1 A:ASP154 4.3 22.9 1.0
OD2 A:ASP154 4.3 24.0 1.0
OD2 A:ASP11 4.4 18.0 1.0
O1B A:ADP401 4.4 19.9 1.0
OD1 A:ASP11 4.5 16.6 1.0
CA A:GLY13 4.5 20.0 1.0
PA A:ADP401 4.5 19.3 1.0
CD A:GLN137 4.6 18.2 1.0
CG2 A:VAL339 4.8 17.9 1.0
CG A:ASP154 4.8 22.2 1.0
CG A:ASP11 4.8 17.4 1.0
CE A:LYS18 4.9 23.1 1.0
CA A:GLY156 5.0 20.1 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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