Magnesium in PDB 4bac: Prototype Foamy Virus Strand Transfer Complexes on Product Dna

All present enzymatic activity of Prototype Foamy Virus Strand Transfer Complexes on Product Dna:
2.7.7.49; 2.7.7.7; 3.1.26.13;

The structure of Prototype Foamy Virus Strand Transfer Complexes on Product Dna, PDB code: 4bac was solved by Z.Yin, M.Lapkouski, W.Yang, R.Craigie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.14 / 3.26
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	160.617, 160.617, 125.092, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 22.6

The structure of Prototype Foamy Virus Strand Transfer Complexes on Product Dna also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Prototype Foamy Virus Strand Transfer Complexes on Product Dna (pdb code 4bac). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Prototype Foamy Virus Strand Transfer Complexes on Product Dna, PDB code: 4bac:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Prototype Foamy Virus Strand Transfer Complexes on Product Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Prototype Foamy Virus Strand Transfer Complexes on Product Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1377 b:30.0 occ:1.00 O A:HOH2002 2.0 30.0 1.0 OD1 A:ASP128 2.4 58.5 1.0 O A:HOH2003 2.5 30.0 1.0 OD2 A:ASP185 3.0 54.0 1.0 OD1 A:ASP185 3.5 52.4 1.0 O A:HOH2001 3.5 30.0 1.0 CG A:ASP185 3.6 51.5 1.0 CG A:ASP128 3.7 55.6 1.0 N A:TYR129 3.8 53.9 1.0 CE2 A:PHE190 3.9 55.1 1.0 O A:TYR129 4.3 54.9 1.0 OD2 A:ASP128 4.4 55.8 1.0 CB A:TYR129 4.4 54.3 1.0 CA A:ASP128 4.5 53.8 1.0 CZ A:PHE190 4.6 54.8 1.0 CA A:TYR129 4.6 54.1 1.0 CB A:ASP128 4.6 54.2 1.0 CD2 A:TYR129 4.7 53.5 1.0 C A:ASP128 4.7 53.9 1.0 C A:TYR129 4.9 54.4 1.0 CD2 A:PHE190 4.9 54.8 1.0

Magnesium binding site 2 out of 2 in the Prototype Foamy Virus Strand Transfer Complexes on Product Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Prototype Foamy Virus Strand Transfer Complexes on Product Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1300 b:50.3 occ:1.00 OD1 B:ASP128 2.7 48.2 1.0 OD2 B:ASP185 3.0 45.4 1.0 O B:TYR129 3.5 46.4 1.0 CG B:ASP128 3.6 46.7 1.0 N B:TYR129 3.6 45.9 1.0 CG B:ASP185 3.8 43.4 1.0 OD1 B:ASP185 3.8 43.2 1.0 OD2 B:ASP128 4.0 46.3 1.0 CB B:TYR129 4.1 46.6 1.0 CA B:TYR129 4.2 46.4 1.0 C B:TYR129 4.3 46.5 1.0 CE2 B:PHE190 4.5 43.0 1.0 C B:ASP128 4.6 45.5 1.0 CA B:ASP128 4.6 45.5 1.0 CB B:ASP128 4.7 45.7 1.0

Z.Yin, M.Lapkouski, W.Yang, R.Craigie. Assembly of Prototype Foamy Virus Strand Transfer Complexes on Product Dna Bypassing Catalysis of Integration. Protein Sci. V. 21 1849 2012.
ISSN: ISSN 0961-8368
PubMed: 23011895
DOI: 10.1002/PRO.2166