Magnesium in PDB 8xoc: Beta-1,4-Galacosyltransferase

The structure of Beta-1,4-Galacosyltransferase, PDB code: 8xoc was solved by G.Luo, Z.Huang, J.Chen, X.Hou, Y.Zhu, D.Ni, W.Xu, W.Zhang, Y.Rao, W.Mu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.88 / 1.87
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	136.148, 57.26, 77.18, 90, 116.49, 90
R / Rfree (%)	20.8 / 24.7

The binding sites of Magnesium atom in the Beta-1,4-Galacosyltransferase (pdb code 8xoc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Beta-1,4-Galacosyltransferase, PDB code: 8xoc:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Beta-1,4-Galacosyltransferase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Beta-1,4-Galacosyltransferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:28.5 occ:1.00 O1B A:GDU301 1.9 25.4 1.0 O2A A:GDU301 1.9 26.3 1.0 OE1 A:GLN213 2.1 27.6 1.0 OD2 A:ASP95 2.2 28.6 1.0 O A:HOH439 2.2 31.1 1.0 O A:HOH406 2.3 22.0 1.0 CD A:GLN213 3.1 25.5 1.0 PB A:GDU301 3.1 29.6 1.0 CG A:ASP95 3.1 29.8 1.0 PA A:GDU301 3.3 26.5 1.0 OD1 A:ASP95 3.5 26.5 1.0 O3A A:GDU301 3.6 27.0 1.0 CG A:GLN213 3.8 27.5 1.0 O A:HOH422 3.9 31.0 1.0 NE2 A:GLN213 4.0 25.5 1.0 O A:HOH456 4.0 36.4 1.0 O2B A:GDU301 4.0 32.2 1.0 C5D A:GDU301 4.2 25.0 1.0 O2' A:GDU301 4.2 31.9 1.0 O5D A:GDU301 4.3 26.2 1.0 CB A:GLN213 4.3 28.5 1.0 O3B A:GDU301 4.3 30.8 1.0 CB A:ASP95 4.4 29.4 1.0 OE2 A:GLU93 4.5 24.2 1.0 O1A A:GDU301 4.5 28.6 1.0 C1' A:GDU301 4.7 39.5 1.0

Magnesium binding site 2 out of 2 in the Beta-1,4-Galacosyltransferase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Beta-1,4-Galacosyltransferase within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg302 b:41.0 occ:1.00 O B:HOH414 1.7 59.7 1.0 O B:HOH422 2.0 34.5 1.0 O2A B:GDU301 2.1 30.3 1.0 OD2 B:ASP95 2.2 38.2 1.0 OE1 B:GLN213 2.3 36.2 1.0 O3B B:GDU301 2.9 42.4 1.0 CG B:ASP95 3.1 37.4 1.0 CD B:GLN213 3.3 36.8 1.0 OD1 B:ASP95 3.5 35.8 1.0 O1B B:GDU301 3.6 46.4 1.0 C1' B:GDU301 3.6 50.6 1.0 PA B:GDU301 3.6 35.1 1.0 PB B:GDU301 3.8 44.6 1.0 O2' B:GDU301 3.8 49.2 1.0 CG B:GLN213 4.1 37.4 1.0 O3A B:GDU301 4.2 36.0 1.0 NE2 B:GLN213 4.2 36.1 1.0 C2' B:GDU301 4.3 48.5 1.0 C5D B:GDU301 4.3 29.3 1.0 CB B:ASP95 4.4 36.0 1.0 O5D B:GDU301 4.5 32.4 1.0 CB B:GLN213 4.5 37.6 1.0 OE2 B:GLU93 4.6 24.5 1.0 O B:HOH431 4.7 39.4 1.0 O1A B:GDU301 4.7 36.7 1.0 O5' B:GDU301 4.8 55.0 1.0 NH1 B:ARG19 5.0 38.1 1.0

G.Luo, Z.Huang, Y.Zhu, J.Chen, X.Hou, D.Ni, W.Xu, W.Zhang, Y.Rao, W.Mu. Crystal Structure and Structure-Guided Tunnel Engineering in A Bacterial Beta-1,4-Galactosyltransferase. Int.J.Biol.Macromol. V. 279 35374 2024.
ISSN: ISSN 0141-8130
PubMed: 39265897
DOI: 10.1016/J.IJBIOMAC.2024.135374