Atomistry » Magnesium » PDB 6wj2-6wqx » 6wmo
Atomistry »
  Magnesium »
    PDB 6wj2-6wqx »
      6wmo »

Magnesium in PDB 6wmo: Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases

Enzymatic activity of Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases

All present enzymatic activity of Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases:
2.4.1.149;

Protein crystallography data

The structure of Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases, PDB code: 6wmo was solved by R.Kadirvelraj, Z.A.Wood, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.85 / 1.85
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 48.190, 109.280, 147.550, 90.00, 90.00, 90.00
R / Rfree (%) 18.3 / 21.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases (pdb code 6wmo). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases, PDB code: 6wmo:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6wmo

Go back to Magnesium Binding Sites List in 6wmo
Magnesium binding site 1 out of 2 in the Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:38.9
occ:1.00
 O A:HOH511 2.0 41.5 1.0
O A:HOH573 2.1 46.8 1.0
O2B A:UDP402 2.1 36.0 1.0
O1A A:UDP402 2.1 38.0 1.0
NE2 A:HIS376 2.3 39.8 1.0
OD2 A:ASP247 2.5 47.9 1.0
CD2 A:HIS376 3.2 39.9 1.0
PB A:UDP402 3.2 42.0 1.0
CE1 A:HIS376 3.3 46.0 1.0
PA A:UDP402 3.4 42.2 1.0
CG A:ASP247 3.5 46.3 1.0
O3A A:UDP402 3.6 42.6 1.0
O3B A:UDP402 3.7 50.0 1.0
OD1 A:ASP247 3.7 42.6 1.0
O A:HOH517 4.1 40.8 1.0
O5' A:UDP402 4.2 38.2 1.0
C5' A:UDP402 4.3 29.6 1.0
CG A:HIS376 4.4 37.9 1.0
ND1 A:HIS376 4.4 43.1 1.0
O2A A:UDP402 4.5 42.7 1.0
O1B A:UDP402 4.6 45.9 1.0
OD2 A:ASP245 4.6 39.8 1.0
CB A:SER377 4.8 39.0 1.0
CB A:ASP247 4.9 38.5 1.0

Magnesium binding site 2 out of 2 in 6wmo

Go back to Magnesium Binding Sites List in 6wmo
Magnesium binding site 2 out of 2 in the Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Poly-N-Acetyl-Lactosamine Synthase Structure Demonstrates A Modular Assembly of Catalytic Subsites For Gt-A Glycosyltransferases within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg401

b:41.7
occ:1.00
 O2B B:UDP402 1.9 39.4 1.0
O1 B:EDO412 2.0 49.3 0.9
O B:HOH502 2.1 35.6 1.0
NE2 B:HIS376 2.2 42.3 1.0
O2A B:UDP402 2.2 48.4 1.0
O2 B:EDO412 2.3 50.1 0.9
C2 B:EDO412 2.9 48.5 0.9
C1 B:EDO412 3.0 47.0 0.9
PB B:UDP402 3.0 40.5 1.0
CE1 B:HIS376 3.1 47.0 1.0
CD2 B:HIS376 3.2 40.3 1.0
PA B:UDP402 3.3 40.7 1.0
O3A B:UDP402 3.4 44.1 1.0
O1B B:UDP402 3.4 42.6 1.0
OD2 B:ASP247 3.9 46.3 1.0
O2 B:EDO414 4.0 60.3 0.9
O B:HOH508 4.1 46.3 1.0
OD1 B:ASP247 4.1 41.3 1.0
C5' B:UDP402 4.1 34.8 1.0
O5' B:UDP402 4.1 39.0 1.0
OD2 B:ASP245 4.2 42.0 1.0
ND1 B:HIS376 4.3 44.4 1.0
CG B:HIS376 4.4 46.5 1.0
O3B B:UDP402 4.4 41.3 1.0
CG B:ASP247 4.4 43.8 1.0
O1A B:UDP402 4.5 40.0 1.0
CB B:SER377 4.9 47.5 1.0
C2 B:EDO414 5.0 51.4 0.9

Reference:

R.Kadirvelraj, J.Y.Yang, H.W.Kim, J.H.Sanders, K.W.Moremen, Z.A.Wood. Comparison of Human Poly-N-Acetyl-Lactosamine Synthase Structure with Gt-A Fold Glycosyltransferases Supports A Modular Assembly of Catalytic Subsites. J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
PubMed: 33229435
DOI: 10.1074/JBC.RA120.015305
Page generated: Wed Aug 13 19:48:38 2025

Last articles

Mg in 7BNR
Mg in 7BNK
Mg in 7BMC
Mg in 7BM9
Mg in 7BM8
Mg in 7BM6
Mg in 7BL4
Mg in 7BL6
Mg in 7BL5
Mg in 7BJT
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy