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Zinc in PDB 3cv5: Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with 3ALPHA,6ALPHA-Mannopentaose

Enzymatic activity of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with 3ALPHA,6ALPHA-Mannopentaose

All present enzymatic activity of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with 3ALPHA,6ALPHA-Mannopentaose:
3.2.1.114;

Protein crystallography data

The structure of Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with 3ALPHA,6ALPHA-Mannopentaose, PDB code: 3cv5 was solved by N.Shah, 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) 19.58 / 1.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 68.687, 109.958, 139.266, 90.00, 90.00, 90.00
R / Rfree (%) 15.9 / 18

Zinc Binding Sites:

The binding sites of Zinc atom in the Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with 3ALPHA,6ALPHA-Mannopentaose (pdb code 3cv5). 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 3ALPHA,6ALPHA-Mannopentaose, PDB code: 3cv5:

Zinc binding site 1 out of 1 in 3cv5

Go back to Zinc Binding Sites List in 3cv5
Zinc binding site 1 out of 1 in the Golgi Mannosidase II D204A Catalytic Nucleophile Mutant Complex with 3ALPHA,6ALPHA-Mannopentaose


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 3ALPHA,6ALPHA-Mannopentaose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1047

b:10.6
occ:1.00
 OD1 A:ASP92 2.0 11.2 1.0
NE2 A:HIS90 2.0 8.7 1.0
O31 A:M5S1048 2.1 11.7 1.0
NE2 A:HIS471 2.1 6.9 1.0
O21 A:M5S1048 2.4 17.9 1.0
CG A:ASP92 2.9 10.0 1.0
C21 A:M5S1048 3.0 15.0 1.0
OD2 A:ASP92 3.0 14.1 1.0
CD2 A:HIS90 3.0 10.8 1.0
CE1 A:HIS90 3.1 8.5 1.0
C31 A:M5S1048 3.1 11.7 1.0
CE1 A:HIS471 3.1 10.8 1.0
CD2 A:HIS471 3.1 7.6 1.0
CB A:ALA204 3.9 10.8 1.0
OD2 A:ASP472 3.9 10.0 1.0
C41 A:M5S1048 4.1 14.2 1.0
ND1 A:HIS90 4.2 10.2 1.0
CG A:HIS90 4.2 7.7 1.0
ND1 A:HIS471 4.2 8.4 1.0
CG A:HIS471 4.2 8.3 1.0
CE1 A:HIS470 4.2 4.3 1.0
CB A:ASP92 4.3 9.5 1.0
O A:HOH1715 4.4 10.6 1.0
C11 A:M5S1048 4.4 16.1 1.0
OH A:TYR269 4.5 13.2 1.0
CA A:ASP92 4.8 11.2 1.0
NE2 A:HIS470 4.8 12.5 1.0
O41 A:M5S1048 4.9 11.9 1.0
O01 A:M5S1048 4.9 17.5 1.0
CG A:ASP472 5.0 9.3 1.0

Reference:

N.Shah, D.A.Kuntz, D.R.Rose. Golgi Alpha-Mannosidase II Cleaves Two Sugars Sequentially in the Same Catalytic Site. Proc.Natl.Acad.Sci.Usa V. 105 9570 2008.
ISSN: ISSN 0027-8424
PubMed: 18599462
DOI: 10.1073/PNAS.0802206105
Page generated: Thu Oct 24 11:57:04 2024

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