Atomistry » Magnesium » PDB 2fx3-2g9y » 2g08
Atomistry »
  Magnesium »
    PDB 2fx3-2g9y »
      2g08 »

Magnesium in PDB 2g08: X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride

Enzymatic activity of X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride

All present enzymatic activity of X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride:
3.1.1.5;

Protein crystallography data

The structure of X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride, PDB code: 2g08 was solved by E.Bitto, C.A.Bingman, G.E.Wesenberg, G.N.Phillips Jr., Center Foreukaryotic Structural Genomics (Cesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 67.52 / 2.35
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 135.044, 135.044, 39.049, 90.00, 90.00, 120.00
R / Rfree (%) 19 / 26

Other elements in 2g08:

The structure of X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride also contains other interesting chemical elements:

Fluorine (F) 6 atoms
Aluminium (Al) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride (pdb code 2g08). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride, PDB code: 2g08:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 2g08

Go back to Magnesium Binding Sites List in 2g08
Magnesium binding site 1 out of 2 in the X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg500

b:35.1
occ:1.00
 O A:HOH503 2.0 25.6 1.0
F2 A:AF3501 2.0 35.8 1.0
OD1 A:ASP238 2.0 40.1 1.0
O A:ASP51 2.0 41.6 1.0
OD2 A:ASP49 2.1 39.9 1.0
O A:HOH619 2.2 24.2 1.0
CG A:ASP238 3.0 40.2 1.0
CG A:ASP49 3.0 39.1 1.0
C A:ASP51 3.2 41.2 1.0
OD1 A:ASP49 3.4 38.4 1.0
OD2 A:ASP238 3.4 38.5 1.0
AL A:AF3501 3.4 35.7 1.0
CA A:ASP51 3.9 40.9 1.0
O A:HOH664 3.9 24.8 1.0
CB A:ASP51 3.9 40.8 1.0
N A:ASP51 3.9 39.5 1.0
OG1 A:THR53 4.0 46.2 1.0
O A:HOH507 4.0 42.8 1.0
OD2 A:ASP242 4.2 39.8 1.0
CB A:MSE52 4.2 42.4 1.0
O A:HOH502 4.2 32.1 1.0
N A:MSE52 4.3 41.7 1.0
F1 A:AF3501 4.3 32.3 1.0
CB A:ASP49 4.3 37.4 1.0
CB A:ASP238 4.4 41.0 1.0
O A:HOH716 4.4 42.7 1.0
F3 A:AF3501 4.5 35.4 1.0
N A:THR53 4.5 41.8 1.0
CG A:MSE52 4.5 43.0 1.0
C A:PHE50 4.5 39.5 1.0
CA A:MSE52 4.6 42.1 1.0
C A:MSE52 4.6 41.8 1.0
N A:ASP238 4.7 41.2 1.0
CB A:THR53 4.8 42.1 1.0
O A:PHE50 4.8 40.4 1.0
N A:PHE50 4.9 40.0 1.0

Magnesium binding site 2 out of 2 in 2g08

Go back to Magnesium Binding Sites List in 2g08
Magnesium binding site 2 out of 2 in the X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of X-Ray Structure of Mouse Pyrimidine 5'-Nucleotidase Type 1, Product- Transition Complex Analog with Aluminum Fluoride within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg600

b:34.9
occ:1.00
 F1 B:AF3601 2.0 37.9 1.0
OD1 B:ASP238 2.0 40.8 1.0
O B:ASP51 2.0 41.8 1.0
O B:HOH603 2.1 32.0 1.0
OD2 B:ASP49 2.1 41.8 1.0
O B:HOH602 2.3 23.6 1.0
CG B:ASP49 3.1 40.0 1.0
CG B:ASP238 3.1 40.4 1.0
C B:ASP51 3.2 41.2 1.0
AL B:AF3601 3.4 38.8 1.0
OD1 B:ASP49 3.4 39.9 1.0
OD2 B:ASP238 3.5 39.8 1.0
CA B:ASP51 3.8 40.8 1.0
CB B:ASP51 3.9 40.4 1.0
N B:ASP51 3.9 39.5 1.0
OG1 B:THR53 4.0 44.5 1.0
O B:HOH679 4.1 31.3 1.0
O B:HOH831 4.2 33.1 1.0
CB B:MSE52 4.2 42.8 1.0
OD2 B:ASP242 4.2 39.8 1.0
N B:MSE52 4.3 41.8 1.0
CB B:ASP49 4.4 37.7 1.0
F2 B:AF3601 4.4 34.9 1.0
CB B:ASP238 4.4 41.0 1.0
F3 B:AF3601 4.4 38.8 1.0
N B:THR53 4.4 41.9 1.0
CG B:MSE52 4.5 43.2 1.0
C B:PHE50 4.5 39.5 1.0
CA B:MSE52 4.6 42.2 1.0
O B:HOH721 4.6 41.7 1.0
C B:MSE52 4.6 41.8 1.0
N B:ASP238 4.7 41.1 1.0
CB B:THR53 4.8 42.1 1.0
O B:PHE50 4.8 40.3 1.0
N B:PHE50 4.9 39.8 1.0

Reference:

E.Bitto, C.A.Bingman, G.E.Wesenberg, J.G.Mccoy, G.N.Phillips. Structure of Pyrimidine 5'-Nucleotidase Type 1. Insight Into Mechanism of Action and Inhibition During Lead Poisoning. J.Biol.Chem. V. 281 20521 2006.
ISSN: ISSN 0021-9258
PubMed: 16672222
DOI: 10.1074/JBC.M602000200
Page generated: Tue Aug 13 23:20:34 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy