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Zinc in PDB 2f7p: Golgi Alpha-Mannosidase II Complex with Benzyl-Mannostatin A

Enzymatic activity of Golgi Alpha-Mannosidase II Complex with Benzyl-Mannostatin A

All present enzymatic activity of Golgi Alpha-Mannosidase II Complex with Benzyl-Mannostatin A:
3.2.1.114;

Protein crystallography data

The structure of Golgi Alpha-Mannosidase II Complex with Benzyl-Mannostatin A, PDB code: 2f7p 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) 29.33 / 1.28
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.954, 109.874, 139.035, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 18

Zinc Binding Sites:

The binding sites of Zinc atom in the Golgi Alpha-Mannosidase II Complex with Benzyl-Mannostatin A (pdb code 2f7p). 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 Complex with Benzyl-Mannostatin A, PDB code: 2f7p:

Zinc binding site 1 out of 1 in 2f7p

Go back to Zinc Binding Sites List in 2f7p
Zinc binding site 1 out of 1 in the Golgi Alpha-Mannosidase II Complex with Benzyl-Mannostatin A


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 Complex with Benzyl-Mannostatin A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn5001

b:5.9
occ:1.00
NE2 A:HIS471 2.1 4.6 1.0
OD2 A:ASP204 2.1 6.0 1.0
NE2 A:HIS90 2.1 5.7 1.0
O3 A:2SK5009 2.2 6.2 1.0
OD1 A:ASP92 2.2 6.5 1.0
O4 A:2SK5009 2.2 6.2 1.0
CD2 A:HIS90 3.1 6.2 1.0
CD2 A:HIS471 3.1 5.3 1.0
CE1 A:HIS471 3.1 4.9 1.0
C4 A:2SK5009 3.1 6.0 1.0
C3 A:2SK5009 3.1 6.0 1.0
CE1 A:HIS90 3.1 5.4 1.0
CG A:ASP92 3.1 6.1 1.0
CG A:ASP204 3.2 6.4 1.0
OD2 A:ASP92 3.5 7.5 1.0
CB A:ASP204 3.6 6.3 1.0
N5 A:2SK5009 3.9 7.6 1.0
C5 A:2SK5009 4.0 7.5 1.0
OD2 A:ASP472 4.1 5.9 1.0
C1 A:2SK5009 4.1 6.3 1.0
ND1 A:HIS471 4.2 5.2 1.0
CG A:HIS90 4.2 4.8 1.0
C2 A:2SK5009 4.2 6.1 1.0
CG A:HIS471 4.2 4.3 1.0
ND1 A:HIS90 4.2 6.0 1.0
OD1 A:ASP204 4.3 6.8 1.0
CE1 A:HIS470 4.5 3.8 1.0
OH A:TYR269 4.5 9.2 1.0
CB A:ASP92 4.5 6.2 1.0
O A:HOH5918 4.6 9.3 1.0
O2 A:2SK5009 4.9 6.8 1.0

Reference:

S.P.Kawatkar, D.A.Kuntz, R.J.Woods, D.R.Rose, G.J.Boons. Structural Basis of the Inhibition of Golgi Alpha-Mannosidase II By Mannostatin A and the Role of the Thiomethyl Moiety in Ligand-Protein Interactions. J.Am.Chem.Soc. V. 128 8310 2006.
ISSN: ISSN 0002-7863
PubMed: 16787095
DOI: 10.1021/JA061216P
Page generated: Wed Dec 16 03:27:51 2020

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