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Magnesium in PDB 3nag: Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp

Enzymatic activity of Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp

All present enzymatic activity of Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp:
2.7.6.1;

Protein crystallography data

The structure of Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp, PDB code: 3nag was solved by M.M.Cherney, L.T.Cherney, C.R.Garen, M.N.G.James, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.92 / 1.75
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 38.561, 141.563, 49.620, 90.00, 95.89, 90.00
R / Rfree (%) 17.6 / 21.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp (pdb code 3nag). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp, PDB code: 3nag:

Magnesium binding site 1 out of 1 in 3nag

Go back to Magnesium Binding Sites List in 3nag
Magnesium binding site 1 out of 1 in the Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Phosphoribosylpyrophosphate (Prpp) Synthetase From Thermoplasma Volcanium in Complex with Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg287

b:52.2
occ:1.00
 O5' B:ADP300 2.1 53.6 1.0
O B:HOH355 2.1 38.2 1.0
O B:HOH389 2.1 33.9 1.0
O1A B:ADP300 2.2 57.1 1.0
O1B B:ADP300 2.2 51.4 1.0
PA B:ADP300 2.5 55.2 1.0
C5' B:ADP300 3.2 43.8 1.0
O3A B:ADP300 3.2 54.6 1.0
PB B:ADP300 3.3 61.7 1.0
NE2 B:HIS124 3.7 29.5 1.0
O2A B:ADP300 3.9 55.9 1.0
O B:HOH388 4.1 43.4 1.0
O4' B:ADP300 4.1 35.1 1.0
C4' B:ADP300 4.2 40.3 1.0
O3B B:ADP300 4.2 61.1 1.0
CD2 B:HIS124 4.4 30.6 1.0
O2B B:ADP300 4.4 46.5 1.0
O B:ARG91 4.5 28.2 1.0
OH B:TYR96 4.6 35.3 1.0
CE1 B:HIS124 4.7 33.1 1.0
NE2 B:HIS93 4.8 35.7 1.0
CD B:ARG91 4.8 35.2 1.0

Reference:

M.M.Cherney, L.T.Cherney, C.R.Garen, M.N.James. The Structures of Thermoplasma Volcanium Phosphoribosyl Pyrophosphate Synthetase Bound to Ribose-5-Phosphate and Atp Analogs. J.Mol.Biol. V. 413 844 2011.
ISSN: ISSN 0022-2836
PubMed: 21963988
DOI: 10.1016/J.JMB.2011.09.007
Page generated: Mon Aug 11 00:51:35 2025

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