Magnesium in PDB 2fpk: Rada Recombinase in Complex with Adp

The structure of Rada Recombinase in Complex with Adp, PDB code: 2fpk was solved by Y.Wu, X.Qian, Y.He, I.A.Moya, Y.Luo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.10
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	83.986, 83.986, 106.367, 90.00, 90.00, 120.00
R / Rfree (%)	23 / 25.7

The structure of Rada Recombinase in Complex with Adp also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Magnesium atom in the Rada Recombinase in Complex with Adp (pdb code 2fpk). 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 in Complex with Adp, PDB code: 2fpk:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rada Recombinase in Complex with Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rada Recombinase in Complex with Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:19.9 occ:1.00 OG1 A:THR112 1.9 18.0 1.0 O1B A:ADP401 2.0 15.4 1.0 O A:HOH602 2.0 12.3 1.0 O A:HOH603 2.0 20.3 1.0 O A:HOH608 2.1 16.5 1.0 O A:HOH601 2.2 13.8 1.0 CB A:THR112 3.1 17.2 1.0 PB A:ADP401 3.3 20.3 1.0 O3B A:ADP401 3.7 21.1 1.0 N A:THR112 3.9 15.9 1.0 O2A A:ADP401 3.9 18.1 1.0 CA A:THR112 4.0 17.0 1.0 OD1 A:ASP211 4.1 25.9 1.0 CG2 A:THR112 4.1 16.0 1.0 OD2 A:ASP211 4.2 25.2 1.0 OG1 A:THR153 4.2 19.0 1.0 O2B A:ADP401 4.2 21.2 1.0 O A:HOH620 4.3 30.2 1.0 O3A A:ADP401 4.4 23.1 1.0 O1A A:ADP401 4.5 24.6 1.0 PA A:ADP401 4.5 21.1 1.0 CG A:ASP211 4.6 24.2 1.0 CB A:LYS111 4.9 14.9 1.0 CE A:LYS111 4.9 17.9 1.0 CB A:THR153 4.9 21.7 1.0 C A:LYS111 5.0 15.0 1.0

Magnesium binding site 2 out of 2 in the Rada Recombinase in Complex with Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rada Recombinase in Complex with Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:25.7 occ:1.00 O A:HOH604 2.0 28.7 1.0 O A:GLN98 2.0 18.9 1.0 O A:HOH606 2.1 25.9 1.0 O A:HOH607 2.1 17.4 1.0 O A:HOH605 2.2 20.7 1.0 OD1 A:ASP246 2.2 22.7 1.0 C A:GLN98 3.1 20.1 1.0 CG A:ASP246 3.1 25.3 1.0 OD2 A:ASP246 3.3 22.9 1.0 N A:SER99 4.0 20.9 1.0 CA A:SER99 4.0 21.3 1.0 OG A:SER99 4.0 26.7 1.0 O A:HOH615 4.1 21.1 1.0 CA A:GLN98 4.1 19.5 1.0 CB A:GLN98 4.3 19.4 1.0 O A:ASN242 4.3 25.1 1.0 ND2 A:ASN242 4.4 24.0 1.0 CB A:ASP246 4.6 23.2 1.0 CB A:SER99 4.7 23.8 1.0 N A:ASP246 4.9 24.6 1.0 CA A:ASP246 5.0 24.6 1.0 CB A:ALA245 5.0 21.8 1.0

X.Qian, Y.Wu, Y.He, I.A.Moya, Y.Luo. Crystal Structure of Methanococcus Voltae Rada in Complex with Adp: Hydrolysis-Induced Conformational Change Biochemistry V. 44 13753 2005.
ISSN: ISSN 0006-2960
PubMed: 16229465
DOI: 10.1021/BI051222I