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Zinc in PDB 1z1l: The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain

Enzymatic activity of The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain

All present enzymatic activity of The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain:
3.1.4.17;

Protein crystallography data

The structure of The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain, PDB code: 1z1l was solved by Y.H.Ding, D.Kohls, C.Low, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.98 / 1.70
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 90.033, 102.549, 81.598, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1z1l:

The structure of The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain (pdb code 1z1l). 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 The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain, PDB code: 1z1l:

Zinc binding site 1 out of 1 in 1z1l

Go back to Zinc Binding Sites List in 1z1l
Zinc binding site 1 out of 1 in the The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn3412

b:18.9
occ:1.00
 NE2 A:HIS696 2.1 12.3 1.0
OD2 A:ASP697 2.2 14.7 1.0
O A:HOH238 2.2 23.4 1.0
NE2 A:HIS660 2.2 14.7 1.0
OD1 A:ASP808 2.3 16.1 1.0
O3 A:PO42693 2.3 27.0 1.0
CD2 A:HIS696 3.0 15.4 1.0
CD2 A:HIS660 3.2 12.9 1.0
CG A:ASP808 3.2 19.0 1.0
CE1 A:HIS696 3.2 13.6 1.0
CG A:ASP697 3.2 14.4 1.0
CE1 A:HIS660 3.3 16.3 1.0
OD2 A:ASP808 3.5 24.9 1.0
P A:PO42693 3.5 29.9 1.0
OD1 A:ASP697 3.7 13.5 1.0
O4 A:PO42693 3.8 29.0 1.0
MG A:MG4062 3.8 12.9 1.0
O A:HOH4 3.9 17.5 1.0
O1 A:PO42693 3.9 29.3 1.0
CG A:HIS696 4.2 12.8 1.0
ND1 A:HIS696 4.2 10.5 1.0
CD2 A:HIS656 4.3 15.0 1.0
CG A:HIS660 4.3 14.6 1.0
ND1 A:HIS660 4.3 15.3 1.0
CB A:ASP697 4.4 13.6 1.0
CB A:ASP808 4.5 15.9 1.0
O2 A:PO42693 4.7 29.2 1.0
NE2 A:HIS656 4.8 15.7 1.0
CG2 A:VAL664 4.9 12.9 1.0
O A:HOH239 5.0 18.1 1.0
O A:ASP808 5.0 16.6 1.0
CA A:ASP808 5.0 15.5 1.0

Reference:

A.Iffland, D.Kohls, S.Low, J.Luan, Y.Zhang, M.Kothe, Q.Cao, A.V.Kamath, Y.H.Ding, T.Ellenberger. Structural Determinants For Inhibitor Specificity and Selectivity in PDE2A Using the Wheat Germ in Vitro Translation System. Biochemistry V. 44 8312 2005.
ISSN: ISSN 0006-2960
PubMed: 15938621
DOI: 10.1021/BI047313H
Page generated: Wed Oct 16 21:05:53 2024

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