Magnesium in PDB 4bdp: Crystal Structure of Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues

The structure of Crystal Structure of Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues, PDB code: 4bdp was solved by J.R.Kiefer, C.Mao, L.S.Beese, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	86.241, 93.275, 106.374, 90.00, 90.00, 90.00
R / Rfree (%)	24.8 / 29.6

The binding sites of Magnesium atom in the Crystal Structure of Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues (pdb code 4bdp). 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 Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues, PDB code: 4bdp:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues


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 Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg950 b:36.9 occ:1.00 OD2 A:ASP653 2.6 24.8 1.0 O A:TYR654 2.7 18.1 1.0 O A:HOH2511 3.1 28.2 1.0 OD2 A:ASP830 3.1 18.0 1.0 CG A:ASP653 3.6 24.1 1.0 O A:HOH2510 3.7 18.8 1.0 O P:HOH2682 3.7 60.2 1.0 O A:HOH2771 3.7 28.6 1.0 C A:TYR654 3.9 18.9 1.0 CB A:ASP653 3.9 21.6 1.0 CG A:ASP830 4.1 18.9 1.0 O P:HOH2542 4.3 52.8 1.0 O A:HOH2561 4.4 44.2 1.0 OD1 A:ASP830 4.5 19.3 1.0 N A:TYR654 4.5 19.2 1.0 CA A:SER655 4.5 19.7 1.0 N A:SER655 4.7 19.2 1.0 C A:ASP653 4.7 20.3 1.0 OD1 A:ASP653 4.7 24.7 1.0 CA A:TYR654 4.9 18.9 1.0 N A:GLN656 4.9 18.3 1.0 CA A:ASP653 4.9 20.7 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues


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 Bacillus Dna Polymerase I Fragment Complexed to 11 Base Pairs of Duplex Dna After Addition of Two Datp Residues within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg952 b:44.6 occ:1.00 NH2 A:ARG779 4.6 27.2 1.0

J.R.Kiefer, C.Mao, J.C.Braman, L.S.Beese. Visualizing Dna Replication in A Catalytically Active Bacillus Dna Polymerase Crystal. Nature V. 391 304 1998.
ISSN: ISSN 0028-0836
PubMed: 9440698
DOI: 10.1038/34693