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Magnesium in PDB 3i0o: Crystal Structure of Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin

Protein crystallography data

The structure of Crystal Structure of Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin, PDB code: 3i0o was solved by D.H.Fong, C.T.Lemke, J.Hwang, B.Xiong, A.M.Berghuis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.89 / 2.40
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 75.008, 75.008, 139.941, 90.00, 90.00, 120.00
R / Rfree (%) 22.9 / 27.5

Other elements in 3i0o:

The structure of Crystal Structure of Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin also contains other interesting chemical elements:

Nickel (Ni) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin (pdb code 3i0o). 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 Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin, PDB code: 3i0o:

Magnesium binding site 1 out of 1 in 3i0o

Go back to Magnesium Binding Sites List in 3i0o
Magnesium binding site 1 out of 1 in the Crystal Structure of Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin


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 Spectinomycin Phosphotransferase, Aph(9)-Ia, in Complex with Adp and Spectinomcyin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:47.5
occ:1.00
O A:HOH642 1.8 43.2 1.0
O2A A:ADP500 1.9 52.6 0.5
OD2 A:ASP230 2.2 50.1 1.0
OD1 A:ASN217 2.3 38.6 1.0
O3B A:ADP500 2.6 50.0 0.5
CG A:ASP230 3.2 51.0 1.0
CG A:ASN217 3.3 35.8 1.0
PA A:ADP500 3.4 56.0 0.5
PB A:ADP500 3.7 53.4 0.5
ND2 A:ASN217 3.7 29.9 1.0
O1B A:ADP500 3.8 51.9 0.5
CB A:ASP230 3.8 47.5 1.0
O3A A:ADP500 3.9 53.6 0.5
OD1 A:ASP230 4.1 54.3 1.0
O5' A:ADP500 4.2 58.3 1.0
C5' A:ADP500 4.2 61.3 1.0
O A:HOH654 4.3 35.5 1.0
O1A A:ADP500 4.4 55.8 0.5
O A:GLY216 4.5 40.5 1.0
O11 A:SMI340 4.5 43.0 1.0
CB A:ASN217 4.6 34.8 1.0
CA A:ASN217 4.9 36.4 1.0
C A:GLY216 4.9 38.5 1.0
O2B A:ADP500 4.9 52.4 0.5

Reference:

D.H.Fong, C.T.Lemke, J.Hwang, B.Xiong, A.M.Berghuis. Structure of the Antibiotic Resistance Factor Spectinomycin Phosphotransferase From Legionella Pneumophila. J.Biol.Chem. V. 285 9545 2010.
ISSN: ISSN 0021-9258
PubMed: 20089863
DOI: 10.1074/JBC.M109.038364
Page generated: Mon Dec 14 08:15:19 2020

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