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Magnesium in PDB 1xra: Crystal Structure of S-Adenosylmethionine Synthetase

Enzymatic activity of Crystal Structure of S-Adenosylmethionine Synthetase

All present enzymatic activity of Crystal Structure of S-Adenosylmethionine Synthetase:
2.5.1.6;

Protein crystallography data

The structure of Crystal Structure of S-Adenosylmethionine Synthetase, PDB code: 1xra was solved by F.Takusagawa, S.Kamitori, S.Misaki, G.D.Markham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 3.00
Space group P 62 2 2
Cell size a, b, c (Å), α, β, γ (°) 128.900, 128.900, 139.800, 90.00, 90.00, 120.00
R / Rfree (%) 18.9 / 26

Other elements in 1xra:

The structure of Crystal Structure of S-Adenosylmethionine Synthetase also contains other interesting chemical elements:

Potassium (K) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of S-Adenosylmethionine Synthetase (pdb code 1xra). 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 S-Adenosylmethionine Synthetase, PDB code: 1xra:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1xra

Go back to Magnesium Binding Sites List in 1xra
Magnesium binding site 1 out of 2 in the Crystal Structure of S-Adenosylmethionine Synthetase


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 S-Adenosylmethionine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg411

b:89.3
occ:1.00
O1 A:PO4384 2.0 74.3 1.0
OD2 A:ASP271 2.3 44.0 1.0
OD2 A:ASP118 2.5 50.7 1.0
CG A:ASP271 3.2 40.6 1.0
OD1 A:ASP271 3.2 47.2 1.0
P A:PO4384 3.5 69.7 1.0
CG A:ASP118 3.7 38.3 1.0
O1 A:PO4385 3.8 0.0 1.0
O A:GLN119 4.0 17.8 1.0
O4 A:PO4384 4.1 77.5 1.0
O2 A:PO4384 4.2 68.1 1.0
O3 A:PO4384 4.3 71.1 1.0
HZ2 A:LYS265 4.3 17.6 0.0
OD1 A:ASP118 4.6 35.8 1.0
CB A:ASP118 4.6 30.3 1.0
CB A:ASP271 4.7 26.2 1.0

Magnesium binding site 2 out of 2 in 1xra

Go back to Magnesium Binding Sites List in 1xra
Magnesium binding site 2 out of 2 in the Crystal Structure of S-Adenosylmethionine Synthetase


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 S-Adenosylmethionine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg412

b:89.0
occ:1.00
O3 A:PO4384 2.0 71.1 1.0
O3 A:PO4385 2.1 0.1 1.0
O2 A:PO4385 2.1 0.3 1.0
P A:PO4385 2.5 0.6 1.0
O1 A:PO4385 3.1 0.0 1.0
P A:PO4384 3.4 69.7 1.0
O4 A:PO4385 3.9 0.3 1.0
O2 A:PO4384 3.9 68.1 1.0
O1 A:PO4384 4.1 74.3 1.0
O4 A:PO4384 4.4 77.5 1.0
OE2 A:GLU42 4.8 36.0 1.0
HZ3 A:LYS265 4.8 17.6 0.0

Reference:

F.Takusagawa, S.Kamitori, S.Misaki, G.D.Markham. Crystal Structure of S-Adenosylmethionine Synthetase. J.Biol.Chem. V. 271 136 1996.
ISSN: ISSN 0021-9258
PubMed: 8550549
DOI: 10.1074/JBC.271.1.136
Page generated: Mon Dec 14 07:05:36 2020

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