Atomistry » Zinc » PDB 3blo-3c37 » 3bvu
Atomistry »
  Zinc »
    PDB 3blo-3c37 »
      3bvu »

Zinc in PDB 3bvu: Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside

Enzymatic activity of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside

All present enzymatic activity of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside:
3.2.1.114;

Protein crystallography data

The structure of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside, PDB code: 3bvu was solved by D.A.Kuntz, D.R.Rose, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.12
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.992, 109.786, 139.049, 90.00, 90.00, 90.00
R / Rfree (%) 11.4 / 15.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside (pdb code 3bvu). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside, PDB code: 3bvu:

Zinc binding site 1 out of 1 in 3bvu

Go back to Zinc Binding Sites List in 3bvu
Zinc binding site 1 out of 1 in the Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with Methyl(Alpha-D-Mannopyranosyl)-(1->3)-S-[(Alpha-D-Mannopyranosyl)-(1- >6)]-Alpha-D-Mannopyranoside within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1048

b:8.9
occ:1.00
 OD1 A:ASP92 2.0 9.2 1.0
NE2 A:HIS90 2.0 8.6 1.0
NE2 A:HIS471 2.0 7.9 1.0
O31 A:WZ21050 2.1 9.6 1.0
O21 A:WZ21050 2.3 10.7 1.0
CG A:ASP92 2.8 8.7 1.0
OD2 A:ASP92 2.9 11.1 1.0
CE1 A:HIS471 3.0 8.3 1.0
C21 A:WZ21050 3.0 10.7 1.0
CD2 A:HIS90 3.0 9.0 1.0
CE1 A:HIS90 3.1 8.8 1.0
CD2 A:HIS471 3.1 7.8 1.0
C31 A:WZ21050 3.1 10.3 1.0
OD2 A:ASP472 3.9 8.9 1.0
CB A:ALA204 3.9 10.8 1.0
C41 A:WZ21050 4.1 9.3 1.0
ND1 A:HIS471 4.2 8.0 1.0
ND1 A:HIS90 4.2 8.6 1.0
CG A:HIS90 4.2 8.2 1.0
CG A:HIS471 4.2 7.5 1.0
CE1 A:HIS470 4.2 8.6 1.0
CB A:ASP92 4.2 8.4 1.0
O A:HOH2403 4.4 11.7 1.0
C11 A:WZ21050 4.5 12.2 1.0
OH A:TYR269 4.6 10.7 1.0
CA A:ASP92 4.8 8.2 1.0
NE2 A:HIS470 4.8 9.2 1.0
CG A:ASP472 4.9 8.5 1.0
O41 A:WZ21050 5.0 9.2 1.0

Reference:

W.Zhong, D.A.Kuntz, B.Ember, H.Singh, K.W.Moremen, D.R.Rose, G.J.Boons. Probing the Substrate Specificity of Golgi Alpha-Mannosidase II By Use of Synthetic Oligosaccharides and A Catalytic Nucleophile Mutant. J.Am.Chem.Soc. V. 130 8975 2008.
ISSN: ISSN 0002-7863
PubMed: 18558690
DOI: 10.1021/JA711248Y
Page generated: Thu Oct 24 11:38:19 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy