Sodium in PDB 6i7w: Structure of the Periplasmic Binding Protein (Pbp) Acca in Complex with 2-Glucose-2-O-Lactic Acid Phosphate (G2LP) From Agrobacterium Fabrum C58

The structure of Structure of the Periplasmic Binding Protein (Pbp) Acca in Complex with 2-Glucose-2-O-Lactic Acid Phosphate (G2LP) From Agrobacterium Fabrum C58, PDB code: 6i7w was solved by S.Morera, A.Vigouroux, A.El Sahili, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.35 / 1.80
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	78.320, 108.280, 113.620, 90.00, 90.00, 90.00
R / Rfree (%)	17.1 / 19.5

The binding sites of Sodium atom in the Structure of the Periplasmic Binding Protein (Pbp) Acca in Complex with 2-Glucose-2-O-Lactic Acid Phosphate (G2LP) From Agrobacterium Fabrum C58 (pdb code 6i7w). 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 Structure of the Periplasmic Binding Protein (Pbp) Acca in Complex with 2-Glucose-2-O-Lactic Acid Phosphate (G2LP) From Agrobacterium Fabrum C58, PDB code: 6i7w:

Sodium binding site 1 out of 1 in the Structure of the Periplasmic Binding Protein (Pbp) Acca in Complex with 2-Glucose-2-O-Lactic Acid Phosphate (G2LP) From Agrobacterium Fabrum C58


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Periplasmic Binding Protein (Pbp) Acca in Complex with 2-Glucose-2-O-Lactic Acid Phosphate (G2LP) From Agrobacterium Fabrum C58 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na603 b:45.1 occ:1.00 O A:HOH728 2.8 37.2 1.0 O A:HOH748 2.9 35.9 1.0 N A:ASN516 3.0 27.9 1.0 O A:LYS229 3.2 35.1 1.0 O A:PHE514 3.7 27.3 1.0 CA A:ASN516 3.8 27.7 1.0 O A:HOH815 3.8 33.3 1.0 CG2 A:THR231 3.8 36.5 1.0 CB A:PRO228 3.9 36.5 1.0 CA A:ARG515 3.9 27.1 1.0 C A:ARG515 3.9 30.3 1.0 O A:PRO228 4.2 33.5 1.0 C A:LYS229 4.3 35.8 1.0 C A:PRO228 4.3 35.8 1.0 ND2 A:ASN516 4.4 34.0 1.0 O A:HOH888 4.4 52.1 1.0 OG1 A:THR231 4.5 41.3 1.0 C A:PHE514 4.5 28.8 1.0 O A:HOH958 4.6 32.0 1.0 N A:ASN517 4.6 26.2 1.0 N A:THR231 4.6 32.9 1.0 N A:ARG515 4.7 27.1 1.0 CG A:PRO228 4.7 40.4 1.0 CA A:PRO228 4.8 34.9 1.0 CB A:THR231 4.8 39.9 1.0 C A:ASN516 4.8 30.8 1.0 N A:LYS229 4.8 32.6 1.0 CG A:ASN516 4.8 42.6 1.0 CA A:PRO230 4.8 31.8 1.0 CB A:ASN516 4.9 28.8 1.0 N A:PRO230 5.0 32.1 1.0

S.Z.Li, A.Vigouroux, M.Ahmar, A.El Sahili, L.Soulere, L.Sago, D.Cornu, S.Morera, Y.Queneau. Synthesis of A Non-Natural Glucose-2-Phosphate Ester Able to Dupe the Acc System of Agrobacterium Fabrum. Org. Biomol. Chem. V. 17 1090 2019.
ISSN: ESSN 1477-0539
PubMed: 30632589
DOI: 10.1039/C8OB03086C