Atomistry » Zinc » PDB 3dsv-3e2c » 3dx4
Atomistry »
  Zinc »
    PDB 3dsv-3e2c »
      3dx4 »

Zinc in PDB 3dx4: Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol

Enzymatic activity of Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol

All present enzymatic activity of Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol:
3.2.1.114;

Protein crystallography data

The structure of Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol, PDB code: 3dx4 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) 19.50 / 1.38
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.769, 109.703, 138.306, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 20.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol (pdb code 3dx4). 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 Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol, PDB code: 3dx4:

Zinc binding site 1 out of 1 in 3dx4

Go back to Zinc Binding Sites List in 3dx4
Zinc binding site 1 out of 1 in the Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Golgi Alpha-Mannosidase II in Complex with Mannostatin Analog (1R,2R, 3R,4S,5R)-4-Amino-5-Methoxycyclopentane-1,2,3-Triol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1047

b:7.8
occ:1.00
 NE2 A:HIS90 2.1 7.4 1.0
NE2 A:HIS471 2.1 6.0 1.0
OD2 A:ASP204 2.1 7.2 1.0
O4 A:GOO1049 2.2 7.5 1.0
OD1 A:ASP92 2.2 7.9 1.0
O3 A:GOO1049 2.2 7.5 1.0
CD2 A:HIS90 3.0 8.3 1.0
CD2 A:HIS471 3.0 6.4 1.0
CE1 A:HIS90 3.1 7.5 1.0
C4 A:GOO1049 3.1 7.3 1.0
CE1 A:HIS471 3.1 8.2 1.0
CG A:ASP92 3.2 7.8 1.0
C3 A:GOO1049 3.2 7.3 1.0
CG A:ASP204 3.2 7.7 1.0
OD2 A:ASP92 3.5 8.9 1.0
CB A:ASP204 3.6 7.3 1.0
N5 A:GOO1049 3.9 8.4 1.0
C5 A:GOO1049 3.9 8.3 1.0
OD2 A:ASP472 4.0 7.3 1.0
C1 A:GOO1049 4.1 7.7 1.0
CG A:HIS90 4.2 6.7 1.0
ND1 A:HIS90 4.2 7.0 1.0
ND1 A:HIS471 4.2 6.8 1.0
CG A:HIS471 4.2 6.0 1.0
OD1 A:ASP204 4.3 7.8 1.0
C2 A:GOO1049 4.3 7.7 1.0
CE1 A:HIS470 4.4 7.6 1.0
CB A:ASP92 4.5 7.6 1.0
O A:HOH2117 4.6 9.8 1.0
OH A:TYR269 4.7 10.7 1.0
O2 A:GOO1049 4.8 8.3 1.0

Reference:

D.A.Kuntz, W.Zhong, J.Guo, D.R.Rose, G.J.Boons. The Molecular Basis of Inhibition of Golgi Alpha-Mannosidase II By Mannostatin A. Chembiochem V. 10 268 2009.
ISSN: ISSN 1439-4227
PubMed: 19101978
DOI: 10.1002/CBIC.200800538
Page generated: Thu Oct 24 12:22:01 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy