Manganese in PDB 5ygm: Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis

The structure of Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis, PDB code: 5ygm was solved by J.H.Park, Y.R.Park, S.J.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.76 / 1.60
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	62.303, 86.590, 89.511, 90.00, 90.00, 90.00
R / Rfree (%)	16.6 / 19.6

The structure of Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Manganese atom in the Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis (pdb code 5ygm). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis, PDB code: 5ygm:

Manganese binding site 1 out of 1 in the Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Monomeric Structure of Concanavalin A at pH 7.5 From Carnivalia Ensiformis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:13.5 occ:1.00 OD2 A:ASP10 2.1 12.1 1.0 OE2 A:GLU8 2.1 11.3 1.0 O A:HOH427 2.2 14.8 1.0 OD1 A:ASP19 2.2 12.9 1.0 NE2 A:HIS24 2.3 12.9 1.0 O A:HOH441 2.3 14.7 1.0 CG A:ASP19 3.1 14.6 1.0 CG A:ASP10 3.2 12.8 1.0 CD A:GLU8 3.2 13.0 1.0 CE1 A:HIS24 3.2 13.2 1.0 CD2 A:HIS24 3.2 13.4 1.0 OD2 A:ASP19 3.5 14.1 1.0 OE1 A:GLU8 3.6 13.8 1.0 CB A:ASP10 3.6 11.2 1.0 O A:HOH496 4.0 14.7 1.0 OG A:SER34 4.1 15.6 1.0 CA A:CA300 4.2 12.8 1.0 OD1 A:ASP10 4.3 12.7 1.0 CB A:ASP19 4.3 13.4 1.0 O A:HOH570 4.3 24.6 1.0 ND1 A:HIS24 4.4 13.4 1.0 CG A:HIS24 4.4 13.2 1.0 CG A:GLU8 4.6 12.8 1.0 CA A:ASP19 4.6 14.9 1.0 O A:VAL32 4.7 17.7 1.0

N.J.Chung, Y.R.Park, D.H.Lee, S.Y.Oh, J.H.Park, S.J.Lee. Heterometal-Coordinated Monomeric Concanavalin A at pH 7.5 From Canavalia Ensiformis J. Microbiol. Biotechnol. V. 27 2241 2017.
ISSN: ESSN 1738-8872
PubMed: 29025256
DOI: 10.4014/JMB.1709.09057