Atomistry » Magnesium » PDB 2b2x-2bhc » 2b8j
Atomistry »
  Magnesium »
    PDB 2b2x-2bhc »
      2b8j »

Magnesium in PDB 2b8j: Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution

Enzymatic activity of Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution

All present enzymatic activity of Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution:
3.1.3.2;

Protein crystallography data

The structure of Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution, PDB code: 2b8j was solved by V.Calderone, C.Forleo, M.Benvenuti, M.C.Thaller, G.M.Rossolini, S.Mangani, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.39 / 2.03
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 89.966, 66.544, 91.544, 90.00, 124.02, 90.00
R / Rfree (%) 17.1 / 22.3

Other elements in 2b8j:

The structure of Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution also contains other interesting chemical elements:

Gold (Au) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution (pdb code 2b8j). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution, PDB code: 2b8j:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 2b8j

Go back to Magnesium Binding Sites List in 2b8j
Magnesium binding site 1 out of 2 in the Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution


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 Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg311

b:13.7
occ:1.00
 OD1 A:ASP167 2.0 12.4 1.0
O A:ASP46 2.1 10.9 1.0
OD2 A:ASP44 2.1 13.8 1.0
O A:HOH737 2.1 11.3 1.0
O A:HOH757 2.1 9.0 1.0
O A:HOH670 2.2 10.7 1.0
CG A:ASP167 3.0 11.9 1.0
CG A:ASP44 3.1 13.3 1.0
C A:ASP46 3.3 11.5 1.0
OD2 A:ASP167 3.3 11.4 1.0
OD1 A:ASP44 3.4 13.8 1.0
OG1 A:THR48 3.8 11.4 1.0
OG A:SER168 3.9 15.6 1.0
CA A:ASP46 4.0 10.8 1.0
OD2 A:ASP171 4.0 11.4 1.0
N A:ASP46 4.1 11.5 1.0
CB A:ASP46 4.2 10.7 1.0
O1 A:PO4301 4.2 30.4 1.0
O A:HOH756 4.2 12.6 1.0
CB A:ASP167 4.3 11.2 1.0
CB A:ASP44 4.4 11.6 1.0
N A:ASP47 4.4 11.2 1.0
O3 A:PO4301 4.4 30.9 1.0
N A:ASP167 4.4 11.1 1.0
CB A:ASP47 4.5 10.9 1.0
O2 A:PO4301 4.7 26.7 1.0
N A:SER168 4.7 10.5 1.0
P A:PO4301 4.7 32.1 1.0
N A:THR48 4.7 10.5 1.0
CA A:ASP47 4.7 11.1 1.0
C A:ASP47 4.7 11.4 1.0
CB A:SER168 4.8 12.5 1.0
O A:HOH660 4.8 12.6 1.0
CA A:ASP167 4.8 10.9 1.0
C A:ILE45 4.8 11.3 1.0
CB A:THR48 4.8 11.2 1.0

Magnesium binding site 2 out of 2 in 2b8j

Go back to Magnesium Binding Sites List in 2b8j
Magnesium binding site 2 out of 2 in the Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Apha Class B Acid Phosphatase/Phosphotransferase Ternary Complex with Adenosine and Phosphate at 2 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg312

b:11.5
occ:1.00
 OD2 B:ASP44 2.0 11.8 1.0
OD1 B:ASP167 2.0 11.9 1.0
O B:HOH348 2.1 16.3 1.0
O B:ASP46 2.1 10.1 1.0
O B:HOH352 2.1 10.2 1.0
O B:HOH350 2.1 10.0 1.0
CG B:ASP44 2.9 11.8 1.0
CG B:ASP167 3.0 13.2 1.0
C B:ASP46 3.2 9.9 1.0
OD1 B:ASP44 3.2 12.6 1.0
OD2 B:ASP167 3.4 13.9 1.0
CA B:ASP46 3.8 10.2 1.0
N B:ASP46 4.0 9.9 1.0
OG1 B:THR48 4.0 10.4 1.0
OD2 B:ASP171 4.0 13.4 1.0
OG B:SER168 4.0 10.2 1.0
CB B:ASP46 4.1 10.5 1.0
O B:HOH422 4.2 13.2 1.0
CB B:ASP44 4.3 12.3 1.0
N B:ASP47 4.3 10.1 1.0
O B:HOH381 4.4 22.1 1.0
CB B:ASP167 4.4 11.5 1.0
CB B:ASP47 4.5 10.9 1.0
N B:ASP167 4.5 11.3 1.0
CA B:ASP47 4.7 10.2 1.0
C B:ASP47 4.7 11.3 1.0
N B:THR48 4.7 10.5 1.0
N B:SER168 4.8 10.7 1.0
C B:ILE45 4.8 11.2 1.0
CB B:SER168 4.8 11.3 1.0
O B:HOH336 4.9 13.3 1.0
O B:HOH346 4.9 12.7 1.0
O4' B:ADN331 4.9 42.9 1.0
CA B:ASP167 4.9 11.1 1.0
CB B:THR48 4.9 10.2 1.0

Reference:

V.Calderone, C.Forleo, M.Benvenuti, M.C.Thaller, G.M.Rossolini, S.Mangani. A Structure-Based Proposal For the Catalytic Mechanism of the Bacterial Acid Phosphatase Apha Belonging to the Dddd Superfamily of Phosphohydrolases J.Mol.Biol. V. 355 708 2006.
ISSN: ISSN 0022-2836
PubMed: 16330049
DOI: 10.1016/J.JMB.2005.10.068
Page generated: Tue Aug 13 21:47:11 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