Magnesium in PDB 3l2r: Crystal Structure of the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium

The structure of Crystal Structure of the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium, PDB code: 3l2r was solved by S.Hare, S.S.Gupta, P.Cherepanov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.00 / 2.88
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	158.480, 158.480, 124.190, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 22.2

The structure of Crystal Structure of the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium (pdb code 3l2r). 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 the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium, PDB code: 3l2r:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium


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 the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg394 b:66.9 occ:1.00 OD1 A:ASP128 2.2 69.8 1.0 OD1 A:ASP185 2.3 72.4 1.0 CG A:ASP128 3.2 64.6 1.0 OD2 A:ASP128 3.5 66.9 1.0 CG A:ASP185 3.5 68.4 1.0 OD2 A:ASP185 4.1 71.0 1.0 O A:TYR129 4.1 61.5 1.0 O3' D:DA17 4.1 69.4 1.0 OE2 A:GLU221 4.4 67.2 1.0 N A:TYR129 4.6 61.0 1.0 CB A:ASP128 4.6 60.3 1.0 CB A:ASP185 4.7 64.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium


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 the Prototype Foamy Virus (Pfv) Intasome in Complex with Magnesium within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg393 b:89.3 occ:1.00 OD1 B:ASP128 2.5 81.6 1.0 OD1 B:ASP185 3.0 81.3 1.0 CG B:ASP128 3.6 77.0 1.0 CG B:ASP185 3.9 77.4 1.0 OD2 B:ASP185 4.0 78.9 1.0 OD2 B:ASP128 4.0 81.3 1.0 O B:TYR129 4.0 73.9 1.0 N B:TYR129 4.1 69.5 1.0 CB B:TYR129 4.5 70.7 1.0 CA B:TYR129 4.7 70.3 1.0 O B:HOH394 4.7 39.4 1.0 C B:TYR129 4.8 72.4 1.0 CB B:ASP128 4.9 70.9 1.0

S.Hare, S.S.Gupta, E.Valkov, A.Engelman, P.Cherepanov. Retroviral Intasome Assembly and Inhibition of Dna Strand Transfer Nature V. 464 232 2010.
ISSN: ISSN 0028-0836
PubMed: 20118915
DOI: 10.1038/NATURE08784