Sodium in PDB 6mp7: Crystal Structure of the E257A Mutant of BLMAN5B in Complex with Glcnac (Soaking)

The structure of Crystal Structure of the E257A Mutant of BLMAN5B in Complex with Glcnac (Soaking), PDB code: 6mp7 was solved by R.Lorizolla-Cordeiro, P.O.Giuseppe, M.T.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.59 / 1.75
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.805, 101.247, 172.935, 90.00, 90.00, 90.00
R / Rfree (%)	17.2 / 19.4

The binding sites of Sodium atom in the Crystal Structure of the E257A Mutant of BLMAN5B in Complex with Glcnac (Soaking) (pdb code 6mp7). 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 Crystal Structure of the E257A Mutant of BLMAN5B in Complex with Glcnac (Soaking), PDB code: 6mp7:

Sodium binding site 1 out of 1 in the Crystal Structure of the E257A Mutant of BLMAN5B in Complex with Glcnac (Soaking)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the E257A Mutant of BLMAN5B in Complex with Glcnac (Soaking) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na503 b:40.3 occ:1.00 OHB A:FLC502 2.3 35.1 1.0 OA2 A:FLC502 2.4 39.4 1.0 O A:HOH849 2.4 49.6 1.0 O A:HOH855 2.5 43.8 1.0 O A:HOH687 2.7 29.8 1.0 CAC A:FLC502 3.3 40.1 1.0 CB A:FLC502 3.4 33.2 1.0 CA A:FLC502 3.5 35.5 1.0 O A:HOH601 3.6 57.5 1.0 O A:HOH618 4.1 36.3 1.0 OD2 A:ASP352 4.2 38.2 1.0 O A:HOH783 4.3 35.3 1.0 O A:HOH775 4.3 65.0 1.0 CG A:FLC502 4.3 27.9 1.0 OA1 A:FLC502 4.4 36.5 1.0 CBC A:FLC502 4.4 38.5 1.0 OB1 A:FLC502 4.4 40.9 1.0 OG1 A:FLC502 4.8 30.5 1.0 O A:HOH892 4.8 60.7 1.0 O A:PRO357 4.8 32.9 1.0 CGC A:FLC502 5.0 33.0 1.0

R.L.Cordeiro, R.A.S.Pirolla, G.F.Persinoti, F.C.Gozzo, P.O.De Giuseppe, M.T.Murakami. N-Glycan Utilization By Bifidobacterium Gut Symbionts Involves A Specialist Beta-Mannosidase. J. Mol. Biol. V. 431 732 2019.
ISSN: ESSN 1089-8638
PubMed: 30641082
DOI: 10.1016/J.JMB.2018.12.017