Sodium in PDB 5nyp: Anbu From Hyphomicrobium Sp. Strain MC1 - Sg: R32

The structure of Anbu From Hyphomicrobium Sp. Strain MC1 - Sg: R32, PDB code: 5nyp was solved by M.-T.Vielberg, M.Groll, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.90
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	176.217, 176.217, 39.551, 90.00, 90.00, 120.00
R / Rfree (%)	19 / 21.5

The binding sites of Sodium atom in the Anbu From Hyphomicrobium Sp. Strain MC1 - Sg: R32 (pdb code 5nyp). 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 Anbu From Hyphomicrobium Sp. Strain MC1 - Sg: R32, PDB code: 5nyp:

Sodium binding site 1 out of 1 in the Anbu From Hyphomicrobium Sp. Strain MC1 - Sg: R32


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Anbu From Hyphomicrobium Sp. Strain MC1 - Sg: R32 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:52.2 occ:0.50 O A:HOH454 1.5 57.5 0.5 O A:HOH451 2.4 60.1 1.0 O A:HOH443 2.4 67.1 1.0 OD2 A:ASP167 3.4 36.9 1.0 OD1 A:ASP167 3.5 33.4 1.0 CG A:ASP167 3.9 34.6 1.0 CG A:ARG165 4.2 35.5 1.0 CB A:ARG165 4.5 33.8 1.0 CD A:ARG165 4.6 37.2 1.0 NE A:ARG165 4.8 39.3 1.0

M.T.Vielberg, V.C.Bauer, M.Groll. On the Trails of the Proteasome Fold: Structural and Functional Analysis of the Ancestral Beta-Subunit Protein Anbu. J. Mol. Biol. V. 430 628 2018.
ISSN: ESSN 1089-8638
PubMed: 29355501
DOI: 10.1016/J.JMB.2018.01.004