Magnesium in PDB 6zix: Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3-

Protein crystallography data

The structure of Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3-, PDB code: 6zix was solved by J.Huesa, A.Marina, P.Casino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 57.79 / 3.40
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 183.22, 183.22, 84.143, 90, 90, 120
R / Rfree (%) 23.9 / 27.4

Other elements in 6zix:

The structure of Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3- also contains other interesting chemical elements:

Fluorine (F) 6 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3- (pdb code 6zix). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3-, PDB code: 6zix:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6zix

Go back to Magnesium Binding Sites List in 6zix
Magnesium binding site 1 out of 2 in the Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3-


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3- within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg301

b:153.7
occ:1.00
OD2 B:ASP56 2.2 135.3 1.0
O B:SER58 2.3 178.9 1.0
OD1 B:ASP11 2.7 165.3 1.0
CB B:SER58 3.4 195.2 1.0
C B:SER58 3.4 181.6 1.0
CG B:ASP56 3.4 140.6 1.0
CG B:ASP11 3.5 167.0 1.0
F1 B:BFD302 3.5 177.6 1.0
OD2 B:ASP11 3.5 163.9 1.0
CE1 B:HIS12 3.6 164.9 1.0
OD1 B:ASP10 3.8 142.0 1.0
CA B:SER58 3.9 187.0 1.0
NE2 B:HIS12 4.0 159.9 1.0
ND1 B:HIS12 4.0 159.8 1.0
OD1 B:ASP56 4.1 142.7 1.0
OG B:SER58 4.3 193.1 1.0
SD B:MET88 4.3 193.0 1.0
OD2 B:ASP10 4.4 145.3 1.0
CG B:ASP10 4.4 147.9 1.0
BE B:BFD302 4.5 176.0 1.0
N B:MET59 4.5 177.7 1.0
CB B:ASP56 4.5 140.5 1.0
N B:SER58 4.6 179.5 1.0
CE B:MET88 4.6 194.8 1.0
CD2 B:HIS12 4.7 157.7 1.0
CG B:HIS12 4.7 157.8 1.0
CA B:MET59 4.9 176.1 1.0
F2 B:BFD302 4.9 168.8 1.0
CB B:ASP11 4.9 168.4 1.0
N B:ASP11 5.0 166.3 1.0

Magnesium binding site 2 out of 2 in 6zix

Go back to Magnesium Binding Sites List in 6zix
Magnesium binding site 2 out of 2 in the Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3-


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Rcsb From Salmonella Enterica Serovar Typhimurium Bound to Promoter P1FLHDC in the Presence of Phosphomimetic BEF3- within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:165.0
occ:1.00
F1 A:BFD302 1.9 189.8 1.0
OD2 A:ASP56 2.3 181.1 1.0
OD1 A:ASP11 2.6 164.9 1.0
OD2 A:ASP11 2.9 156.5 1.0
BE A:BFD302 3.0 179.2 1.0
CG A:ASP11 3.0 165.6 1.0
OD1 A:ASP10 3.0 177.1 1.0
F3 A:BFD302 3.3 183.4 1.0
O A:SER58 3.3 170.4 1.0
CG A:ASP56 3.4 184.7 1.0
NZ A:LYS109 3.7 176.5 1.0
OD1 A:ASP56 3.8 192.7 1.0
CE1 A:HIS12 3.9 189.7 1.0
ND1 A:HIS12 3.9 184.0 1.0
CG A:ASP10 4.1 175.0 1.0
F2 A:BFD302 4.2 163.8 1.0
N A:ASP11 4.4 167.6 1.0
CB A:ASP11 4.4 167.6 1.0
OD2 A:ASP10 4.5 184.0 1.0
C A:SER58 4.6 174.3 1.0
CB A:ASP56 4.6 184.6 1.0
NE2 A:HIS12 4.7 192.5 1.0
CE A:LYS109 4.7 174.6 1.0
CG A:HIS12 4.7 182.7 1.0
CE A:MET88 4.8 198.3 1.0
CA A:ASP11 4.9 168.0 1.0
N A:HIS12 4.9 176.0 1.0

Reference:

J.Huesa, J.Giner-Lamia, M.G.Pucciarelli, F.Paredes-Martinez, F.Garcia-Del Portillo, A.Marina, P.Casino. Structure-Based Analyses of Salmonella Rcsb Variants Unravel New Features of the Rcs Regulon Nucleic Acids Res. 2021.
ISSN: ESSN 1362-4962
DOI: 10.1093/NAR/GKAB060
Page generated: Wed Mar 3 14:59:32 2021

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