Magnesium in PDB 3ew9: Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions

The structure of Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions, PDB code: 3ew9 was solved by Y.Li, Y.He, Y.Luo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.40
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	81.200, 81.200, 107.100, 90.00, 90.00, 120.00
R / Rfree (%)	21.6 / 26

The structure of Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions also contains other interesting chemical elements:

Potassium

(K)

2 atoms

The binding sites of Magnesium atom in the Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions (pdb code 3ew9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions, PDB code: 3ew9:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:32.5 occ:1.00 O1B A:ANP401 2.1 31.6 1.0 O A:HOH603 2.1 28.6 1.0 O A:HOH602 2.1 25.8 1.0 OG1 A:THR112 2.2 28.2 1.0 O A:HOH601 2.3 27.5 1.0 O2G A:ANP401 2.5 46.7 1.0 O1G A:ANP401 2.7 40.7 1.0 PG A:ANP401 3.0 39.1 1.0 PB A:ANP401 3.3 34.1 1.0 CB A:THR112 3.4 28.1 1.0 N3B A:ANP401 3.6 39.6 1.0 K A:K504 3.7 51.1 1.0 O A:HOH608 3.7 32.5 1.0 OE1 A:GLU151 4.0 46.5 1.0 N A:THR112 4.2 29.6 1.0 O2B A:ANP401 4.2 33.6 1.0 O2A A:ANP401 4.3 39.5 1.0 OD1 A:ASP211 4.3 38.8 1.0 CA A:THR112 4.3 28.9 1.0 O3G A:ANP401 4.4 43.1 1.0 CG2 A:THR112 4.4 30.3 1.0 O3A A:ANP401 4.4 38.8 1.0 OD2 A:ASP211 4.4 37.3 1.0 OG1 A:THR153 4.6 40.2 1.0 CG2 A:THR153 4.6 41.4 1.0 CE A:LYS111 4.7 29.1 1.0 O1A A:ANP401 4.7 38.4 1.0 PA A:ANP401 4.7 35.6 1.0 CG A:ASP211 4.8 36.5 1.0 CB A:THR153 4.9 37.3 1.0 CD A:GLU151 4.9 44.5 1.0 NZ A:LYS111 4.9 31.7 1.0 CB A:LYS111 5.0 28.7 1.0

Magnesium binding site 2 out of 2 in the Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rada Recombinase From Methanococcus Maripaludis in Complex with Amppnp and Potassium Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:36.6 occ:1.00 O A:HOH605 1.9 25.6 1.0 O A:GLN98 2.2 35.0 1.0 O A:HOH604 2.2 33.8 1.0 O A:HOH607 2.3 34.9 1.0 OD1 A:ASP246 2.3 37.8 1.0 O A:HOH606 3.0 34.5 1.0 CG A:ASP246 3.2 36.2 1.0 C A:GLN98 3.3 34.0 1.0 OD2 A:ASP246 3.4 35.4 1.0 N A:SER99 4.2 33.2 1.0 CA A:SER99 4.2 34.5 1.0 CA A:GLN98 4.3 35.1 1.0 OG A:SER99 4.3 40.2 1.0 CB A:GLN98 4.3 33.1 1.0 ND2 A:ASN242 4.4 32.3 1.0 CB A:ASP246 4.6 35.5 1.0 O A:ASN242 4.7 35.9 1.0 CB A:SER99 4.9 34.2 1.0

Y.Li, Y.He, Y.Luo. Conservation of A Conformational Switch in Rada Recombinase From Methanococcus Maripaludis. Acta Crystallogr.,Sect.D V. 65 602 2009.
ISSN: ISSN 0907-4449
PubMed: 19465774
DOI: 10.1107/S0907444909011871