Magnesium in PDB 2bgw: Xpf From Aeropyrum Pernix, Complex with Dna

The structure of Xpf From Aeropyrum Pernix, Complex with Dna, PDB code: 2bgw was solved by M.Newman, J.Murray-Rust, J.Lally, J.Rudolf, A.Fadden, P.P.Knowles, M.F.White, N.Q.Mcdonald, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.80
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	141.312, 141.312, 85.311, 90.00, 90.00, 120.00
R / Rfree (%)	22.3 / 26.3

The binding sites of Magnesium atom in the Xpf From Aeropyrum Pernix, Complex with Dna (pdb code 2bgw). 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 Xpf From Aeropyrum Pernix, Complex with Dna, PDB code: 2bgw:

Magnesium binding site 1 out of 1 in the Xpf From Aeropyrum Pernix, Complex with Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Xpf From Aeropyrum Pernix, Complex with Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1230 b:62.0 occ:1.00 OE2 A:GLU62 2.3 39.9 1.0 OD2 A:ASP52 2.4 34.3 1.0 O A:ARG63 2.6 32.5 1.0 CG A:ASP52 3.1 33.4 1.0 OD1 A:ASP52 3.1 36.2 1.0 CD A:GLU62 3.1 38.3 1.0 OE1 A:GLU62 3.4 39.2 1.0 C A:ARG63 3.8 32.2 1.0 N A:ARG63 4.0 31.4 1.0 CE A:LYS64 4.2 39.5 1.0 CA A:ARG63 4.4 31.5 1.0 CG A:GLU62 4.5 34.1 1.0 CB A:ASP52 4.6 31.3 1.0 NE2 A:GLN81 4.8 49.5 1.0 C A:GLU62 4.8 31.0 1.0 CB A:ARG63 4.8 30.8 1.0 CD A:LYS64 4.8 37.1 1.0 N A:LYS64 4.8 33.0 1.0 CG A:LYS64 4.9 35.1 1.0

M.Newman, J.Murray-Rust, J.Lally, J.Rudolf, A.Fadden, P.P.Knowles, M.F.White, N.Q.Mcdonald. Structure of An Xpf Endonuclease with and Without Dna Suggests A Model For Substrate Recognition. Embo J. V. 24 895 2005.
ISSN: ISSN 0261-4189
PubMed: 15719018
DOI: 10.1038/SJ.EMBOJ.7600581