Sodium in PDB 6v2t: X-Ray Structure of A Sugar N-Formyltransferase From Shewanella Sp FDAARGOS_354

The structure of X-Ray Structure of A Sugar N-Formyltransferase From Shewanella Sp FDAARGOS_354, PDB code: 6v2t was solved by N.M.Girardi, J.B.Thoden, H.M.Holden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.10 / 1.90
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	78.966, 202.472, 74.439, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 24.5

The binding sites of Sodium atom in the X-Ray Structure of A Sugar N-Formyltransferase From Shewanella Sp FDAARGOS_354 (pdb code 6v2t). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the X-Ray Structure of A Sugar N-Formyltransferase From Shewanella Sp FDAARGOS_354, PDB code: 6v2t:

Sodium binding site 1 out of 1 in the X-Ray Structure of A Sugar N-Formyltransferase From Shewanella Sp FDAARGOS_354


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of A Sugar N-Formyltransferase From Shewanella Sp FDAARGOS_354 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na304 b:36.1 occ:1.00 O B:TRP146 2.2 30.7 1.0 O B:HOH515 2.3 33.4 1.0 O B:ALA241 2.3 34.0 1.0 O B:HOH489 2.4 31.8 1.0 OD1 B:ASN151 2.4 31.6 1.0 C B:ALA241 3.4 31.5 1.0 C B:TRP146 3.4 32.8 1.0 CG B:ASN151 3.5 34.1 1.0 N B:ALA241 4.0 30.9 1.0 CA B:ALA241 4.0 29.4 1.0 CB B:ALA241 4.0 29.6 1.0 ND2 B:ASN151 4.0 33.5 1.0 O B:HOH449 4.0 33.5 1.0 CA B:ASP147 4.0 28.2 1.0 N B:THR148 4.1 27.1 1.0 O B:HOH512 4.1 57.1 1.0 N B:ASP147 4.2 30.3 1.0 CD1 B:TRP146 4.3 35.4 1.0 C B:ASP147 4.3 29.0 1.0 O B:HOH499 4.4 35.6 1.0 CG2 B:THR148 4.5 30.0 1.0 N B:GLU242 4.5 32.8 1.0 CB B:TRP146 4.5 33.9 1.0 CA B:TRP146 4.5 33.3 1.0 CB B:ASN151 4.7 32.3 1.0 CG B:TRP146 4.8 33.6 1.0 CA B:GLU242 4.8 33.9 1.0 O B:HOH483 4.8 41.0 1.0 OG1 B:THR148 4.9 27.7 1.0

N.M.Girardi, J.B.Thoden, H.M.Holden. Misannotations of the Genes Encoding Sugar N-Formyltransferases. Protein Sci. 2019.
ISSN: ESSN 1469-896X
PubMed: 31867814
DOI: 10.1002/PRO.3807