Magnesium in PDB 4r2m: Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium

The structure of Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium, PDB code: 4r2m was solved by M.Bangera, M.R.N.Murthy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.48 / 2.20
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	131.180, 131.180, 33.000, 90.00, 90.00, 90.00
R / Rfree (%)	19.5 / 23.4

The binding sites of Magnesium atom in the Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium (pdb code 4r2m). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium, PDB code: 4r2m:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:30.2 occ:1.00 O1A A:ANP202 1.9 33.9 0.5 O1A A:ANP202 2.0 11.2 0.5 O A:HOH306 2.0 28.9 1.0 O1B A:ANP202 2.0 16.4 0.5 O A:HOH302 2.1 25.8 1.0 O A:HOH301 2.1 24.5 1.0 O A:HOH304 2.1 27.9 1.0 PA A:ANP202 3.1 11.5 0.5 C5' A:ANP202 3.1 37.3 0.5 PA A:ANP202 3.2 33.2 0.5 PB A:ANP202 3.2 16.0 0.5 O3A A:ANP202 3.3 14.6 0.5 O5' A:ANP202 3.5 35.9 0.5 O5' A:ANP202 3.6 12.1 0.5 NH2 A:ARG117 3.7 45.6 1.0 C8 A:ANP202 3.8 39.6 0.5 ND2 A:ASN128 3.9 30.4 1.0 N7 A:ANP202 4.0 14.9 0.5 O2G A:ANP202 4.0 22.3 0.5 O1B A:ANP202 4.0 39.5 0.5 O3A A:ANP202 4.1 38.3 0.5 OD2 A:ASP10 4.1 31.4 1.0 C8 A:ANP202 4.1 14.7 0.5 O A:HOH324 4.1 41.7 1.0 N7 A:ANP202 4.1 39.0 0.5 O A:HOH339 4.2 46.1 1.0 O2B A:ANP202 4.2 18.3 0.5 NH1 A:ARG117 4.3 47.4 1.0 O2A A:ANP202 4.3 35.9 0.5 N3B A:ANP202 4.4 19.4 0.5 O2A A:ANP202 4.4 10.9 0.5 CZ A:ARG117 4.4 47.0 1.0 PB A:ANP202 4.5 46.2 0.5 C4' A:ANP202 4.5 42.2 0.5 PG A:ANP202 4.6 24.8 0.5 O1G A:ANP202 4.6 26.8 0.5 O2B A:ANP202 4.7 44.9 0.5 O A:HOH323 4.7 26.5 1.0 N9 A:ANP202 5.0 41.0 0.5

Magnesium binding site 2 out of 2 in the Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of R134D Mutant of Ynaf (Universal Stress Protein F) From Salmonella Typhimurium within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:29.2 occ:1.00 O1A B:ANP202 1.8 43.6 0.5 O1B B:ANP202 1.9 16.3 0.5 O1A B:ANP202 2.0 12.2 0.5 O B:HOH304 2.0 37.5 1.0 O B:HOH322 2.1 27.5 1.0 O B:HOH301 2.1 31.0 1.0 O B:HOH302 2.2 29.4 1.0 PA B:ANP202 3.1 12.0 0.5 PA B:ANP202 3.1 46.4 0.5 PB B:ANP202 3.2 16.2 0.5 O5' B:ANP202 3.3 41.7 0.5 O3A B:ANP202 3.4 15.1 0.5 C5' B:ANP202 3.4 43.3 0.5 O5' B:ANP202 3.7 13.7 0.5 NH2 B:ARG117 3.7 42.2 1.0 O1B B:ANP202 3.8 45.8 0.5 O2G B:ANP202 3.8 19.0 0.5 ND2 B:ASN128 3.8 29.1 1.0 C8 B:ANP202 3.9 40.2 0.5 O B:HOH310 3.9 38.9 1.0 N7 B:ANP202 4.0 19.2 0.5 C8 B:ANP202 4.1 19.3 0.5 O3A B:ANP202 4.1 45.1 0.5 O2A B:ANP202 4.2 44.6 0.5 N7 B:ANP202 4.2 38.4 0.5 PB B:ANP202 4.2 47.6 0.5 O2B B:ANP202 4.2 48.4 0.5 OD2 B:ASP10 4.2 32.4 1.0 O B:HOH308 4.2 34.9 1.0 O2B B:ANP202 4.2 16.9 0.5 N3B B:ANP202 4.3 17.8 0.5 O2A B:ANP202 4.4 12.8 0.5 PG B:ANP202 4.5 19.6 0.5 O1G B:ANP202 4.6 18.9 0.5 CZ B:ARG117 4.6 44.2 1.0 NH1 B:ARG117 4.8 45.1 1.0 O B:HOH307 4.8 31.0 1.0 C4' B:ANP202 4.9 43.3 0.5

M.Bangera, R.Panigrahi, S.R.Sagurthi, H.S.Savithri, M.R.N.Murthy. Structural and Functional Analysis of Two Universal Stress Proteins Ydaa and Ynaf From Salmonella Typhimurium: Possible Roles in Microbial Stress Tolerance J.Struct.Biol. 2015.
ISSN: ESSN 1095-8657
PubMed: 25600413
DOI: 10.1016/J.JSB.2015.01.003