Sodium in PDB 6qw2: The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes

The structure of The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes, PDB code: 6qw2 was solved by M.Hall, C.Grundstrom, S.Hansen, K.Brannstrom, J.Johansson, A.E.Sauer-Eriksson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.54 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	47.837, 88.021, 116.386, 90.00, 90.00, 90.00
R / Rfree (%)	17.8 / 25.4

The binding sites of Sodium atom in the The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes (pdb code 6qw2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes, PDB code: 6qw2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:36.2 occ:1.00 O A:HOH404 2.3 46.4 1.0 O A:HOH467 2.4 42.5 1.0 O A:HOH446 2.4 30.6 1.0 OE1 A:GLU36 2.8 31.3 1.0 O A:ASN30 2.8 36.5 1.0 O A:HOH472 3.2 39.7 1.0 OE2 A:GLU36 3.4 24.1 1.0 CD A:GLU36 3.4 32.2 1.0 C A:ASN30 3.9 26.6 1.0 O A:ASP33 4.0 44.1 1.0 CB A:SER71 4.0 44.5 1.0 OG A:SER71 4.1 36.2 1.0 CD1 A:PHE29 4.3 28.5 1.0 O A:GLN35 4.4 48.4 1.0 CA A:GLN31 4.4 26.1 1.0 O A:HOH442 4.6 34.0 1.0 N A:GLN31 4.6 24.4 1.0 O A:TYR83 4.6 28.8 1.0 N A:ASN30 4.7 29.0 1.0 O A:HOH478 4.7 38.5 1.0 C A:GLN31 4.7 38.5 1.0 CB A:ASP33 4.8 38.1 1.0 CB A:PHE29 4.9 39.9 1.0 CG A:PHE29 4.9 27.5 1.0 N A:ASP33 4.9 33.8 1.0 CG A:GLU36 4.9 39.8 1.0 CA A:ASN30 4.9 28.6 1.0 C A:ASP33 4.9 45.5 1.0 CE1 A:PHE29 5.0 38.6 1.0 O A:SER71 5.0 25.0 1.0

Sodium binding site 2 out of 2 in the The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Transcriptional Regulator Prfa-A218G Mutant From Listeria Monocytogenes within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:31.7 occ:1.00 O B:HOH432 2.5 31.1 1.0 O B:ASN30 2.6 23.7 1.0 O B:HOH457 2.7 53.9 1.0 O B:HOH438 2.7 26.5 1.0 OE1 B:GLU36 2.8 26.7 1.0 O B:ASP33 3.2 44.6 1.0 OE2 B:GLU36 3.2 30.4 1.0 CD B:GLU36 3.3 40.3 1.0 C B:ASN30 3.8 30.9 1.0 O B:GLN35 3.9 36.2 1.0 CB B:ASP33 4.0 31.8 1.0 N B:ASP33 4.1 37.2 1.0 C B:ASP33 4.1 35.0 1.0 CA B:GLN31 4.3 27.1 1.0 CA B:ASP33 4.3 33.9 1.0 C B:GLN31 4.4 27.9 1.0 N B:GLN31 4.5 26.5 1.0 OG B:SER71 4.5 24.5 1.0 CB B:SER71 4.7 35.7 1.0 N B:ASN30 4.7 23.1 1.0 O B:GLN31 4.7 30.1 1.0 O B:HOH435 4.7 29.3 1.0 N B:TRP32 4.8 38.8 1.0 CD1 B:PHE29 4.8 31.8 1.0 CG B:GLU36 4.8 28.3 1.0 C B:GLN35 4.9 33.1 1.0 CA B:ASN30 4.9 26.7 1.0 O B:TYR83 4.9 23.4 1.0 O B:HOH413 5.0 17.2 1.0

S.Hansen, M.Hall, C.Grundstrom, K.Brannstrom, A.E.Sauer-Eriksson, J.Johansson. A Novel Growth Based Selection Strategy Identifies New Constitutively Active Variants of the Major Virulence Regulator Prfa Inlisteria Monocytogenes. J.Bacteriol. 2020.
ISSN: ESSN 1098-5530
PubMed: 32179627
DOI: 10.1128/JB.00115-20