Manganese in PDB 6rtg: Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin

The structure of Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin, PDB code: 6rtg was solved by C.Wirth, X.Bogdanovic, W.-C.Kao, C.Hunte, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.56 / 1.90
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	164.270, 164.270, 47.740, 90.00, 90.00, 90.00
R / Rfree (%)	18.6 / 22.3

The structure of Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Manganese atom in the Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin (pdb code 6rtg). 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 Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin, PDB code: 6rtg:

Manganese binding site 1 out of 1 in the Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of the Udp-Bound Glycosyltransferase Domain From the Ygt Toxin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn602 b:26.0 occ:1.00 O1B A:UDP601 2.1 23.8 1.0 O A:HOH734 2.2 23.9 1.0 OD1 A:ASP213 2.2 26.5 1.0 OE1 A:GLU427 2.3 27.7 1.0 O1A A:UDP601 2.3 28.0 1.0 O A:HOH786 2.3 26.4 1.0 CG A:ASP213 3.2 26.5 1.0 PB A:UDP601 3.2 28.4 1.0 OD2 A:ASP213 3.4 23.8 1.0 PA A:UDP601 3.5 29.6 1.0 CD A:GLU427 3.5 30.3 1.0 O3B A:UDP601 3.6 25.8 1.0 O3A A:UDP601 3.7 27.9 1.0 K A:K603 3.7 33.3 1.0 O A:HOH705 3.7 41.7 1.0 O A:HOH982 4.0 37.8 1.0 O A:HOH741 4.0 29.7 1.0 O A:GLU427 4.1 28.5 1.0 OE2 A:GLU427 4.1 35.2 1.0 OD2 A:ASP211 4.3 23.7 1.0 CA A:GLU427 4.3 25.8 1.0 O A:HOH918 4.3 56.0 1.0 O2A A:UDP601 4.5 36.7 1.0 O5' A:UDP601 4.5 27.9 1.0 CB A:ASP213 4.6 26.7 1.0 O2B A:UDP601 4.6 29.3 1.0 CG A:GLU427 4.6 32.2 1.0 C5' A:UDP601 4.6 29.5 1.0 CB A:GLU427 4.7 25.4 1.0 C A:GLU427 4.7 33.1 1.0 O1 A:EDO604 4.9 55.0 1.0

G.S.Ost, C.Wirth, X.Bogdanovic, W.-C.Kao, B.Schorch, P.J.K.Aktories, M.Westphal, P.Papatheodorou, C.Schwan, A.Schlosser, W.Driever, T.Jank, C.Hunte, K.Aktories. Inverse Control of Rab Proteins By Yersinia Adp-Ribosyltransferase and Glycosyltransferase Related to Clostridial Glucosylating Toxins Sci Adv 2020.
ISSN: ESSN 2375-2548
DOI: 10.1126/SCIADV.AAZ2094