Sodium in PDB 5d7z: Crystal Structure of Glyoxalase I From Zea Mays

All present enzymatic activity of Crystal Structure of Glyoxalase I From Zea Mays:
4.4.1.5;

The structure of Crystal Structure of Glyoxalase I From Zea Mays, PDB code: 5d7z was solved by J.M.Gonzalez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.80 / 1.73
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	90.690, 90.690, 74.713, 90.00, 90.00, 120.00
R / Rfree (%)	16.6 / 20.2

The structure of Crystal Structure of Glyoxalase I From Zea Mays also contains other interesting chemical elements:

Nickel

(Ni)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Glyoxalase I From Zea Mays (pdb code 5d7z). 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 Glyoxalase I From Zea Mays, PDB code: 5d7z:

Sodium binding site 1 out of 1 in the Crystal Structure of Glyoxalase I From Zea Mays


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 Glyoxalase I From Zea Mays within 5.0Å range: probe atom residue distance (Å) B Occ A:Na307 b:33.3 occ:1.00 O13 A:2PE308 2.3 40.8 1.0 O10 A:2PE308 2.3 37.1 1.0 O16 A:2PE308 2.3 44.0 1.0 O7 A:2PE308 2.3 39.6 1.0 O4 A:2PE308 2.3 44.3 1.0 O A:HOH435 2.3 34.2 1.0 O19 A:2PE308 2.3 45.5 1.0 C9 A:2PE308 3.0 36.2 1.0 C8 A:2PE308 3.2 37.5 1.0 C5 A:2PE308 3.2 45.0 1.0 C12 A:2PE308 3.3 32.9 1.0 C15 A:2PE308 3.3 39.4 1.0 C6 A:2PE308 3.3 42.8 1.0 C11 A:2PE308 3.3 35.9 1.0 C14 A:2PE308 3.3 38.1 1.0 C18 A:2PE308 3.3 45.1 1.0 C17 A:2PE308 3.3 44.9 1.0 C20 A:2PE308 3.4 50.9 1.0 C3 A:2PE308 3.5 50.7 1.0 C2 A:2PE308 4.0 51.2 1.0 O2 A:FMT303 4.2 34.0 1.0 O22 A:2PE308 4.6 56.2 1.0 C21 A:2PE308 4.6 49.7 1.0 O1 A:2PE308 4.9 47.8 1.0 O A:HOH473 5.0 32.0 1.0

G.L.Turra, R.B.Agostini, C.M.Fauguel, D.A.Presello, C.S.Andreo, J.M.Gonzalez, V.A.Campos-Bermudez. Structure of the Novel Monomeric Glyoxalase I From Zea Mays. Acta Crystallogr.,Sect.D V. 71 2009 2015.
ISSN: ESSN 1399-0047
PubMed: 26457425
DOI: 10.1107/S1399004715015205