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Zinc in PDB 1v48: Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine

Enzymatic activity of Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine

All present enzymatic activity of Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine:
2.4.2.1;

Protein crystallography data

The structure of Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine, PDB code: 1v48 was solved by M.Luic, G.Koellner, T.Yokomatsu, S.Shibuya, A.Bzowska, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.20
Space group P 21 3
Cell size a, b, c (Å), α, β, γ (°) 93.183, 93.183, 93.183, 90.00, 90.00, 90.00
R / Rfree (%) 19.1 / 24.2

Other elements in 1v48:

The structure of Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine also contains other interesting chemical elements:

Fluorine (F) 2 atoms
Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine (pdb code 1v48). 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 Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine, PDB code: 1v48:

Zinc binding site 1 out of 1 in 1v48

Go back to Zinc Binding Sites List in 1v48
Zinc binding site 1 out of 1 in the Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Calf Spleen Purine Nucleoside Phosphorylase (Pnp) Binary Complex with 9-(5,5-Difluoro-5-Phosphonopenthyl)Guanine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:2.0
occ:0.33
 NE2 A:HIS20 1.9 18.4 1.0
O A:HOH577 2.6 11.0 0.3
CD2 A:HIS20 2.9 16.8 1.0
CE1 A:HIS20 3.0 16.0 1.0
CG A:HIS20 4.0 18.9 1.0
ND1 A:HIS20 4.0 18.5 1.0
O A:HOH561 4.2 30.8 1.0
NE1 A:TRP16 4.7 21.9 1.0
CZ2 A:TRP16 4.7 20.6 1.0
CE2 A:TRP16 5.0 20.9 1.0
O A:HOH507 5.0 28.2 1.0

Reference:

M.Luic, G.Koellner, T.Yokomatsu, S.Shibuya, A.Bzowska. Calf Spleen Purine-Nucleoside Phosphorylase: Crystal Structure of the Binary Complex with A Potent Multisubstrate Analogue Inhibitor. Acta Crystallogr.,Sect.D V. 60 1417 2004.
ISSN: ISSN 0907-4449
PubMed: 15272165
DOI: 10.1107/S0907444904013861
Page generated: Wed Dec 16 03:07:28 2020

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