Calcium in PDB 4dsj: Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium

All present enzymatic activity of Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium:
2.7.7.7;

The structure of Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium, PDB code: 4dsj was solved by J.H.Gan, R.Abdur, H.H.Liu, J.Sheng, J.Caton-Willians, A.S.Soares, Z.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	114.73 / 2.86
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.016, 112.070, 229.450, 90.00, 90.00, 90.00
R / Rfree (%)	21.3 / 27.7

The binding sites of Calcium atom in the Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium (pdb code 4dsj). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium, PDB code: 4dsj:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1002 b:0.1 occ:0.80 OE2 A:GLU831 2.8 68.2 1.0 OP1 C:DG12 2.9 50.6 1.0 OD1 A:ASP830 3.5 59.9 1.0 C4' A:DGT1001 3.5 0.6 0.8 O3' A:DGT1001 3.6 0.8 0.8 C5' C:DG12 3.7 45.8 1.0 OD2 A:ASP830 3.7 59.8 1.0 CD A:GLU831 3.9 67.8 1.0 O3' C:DG12 4.0 41.2 1.0 CG A:ASP830 4.0 57.7 1.0 P C:DG12 4.0 47.4 1.0 O5' C:DG12 4.0 46.8 1.0 C3' A:DGT1001 4.2 0.6 0.8 O4' A:DGT1001 4.3 0.3 0.8 CG A:GLU831 4.3 62.4 1.0 C5' A:DGT1001 4.3 0.1 0.8 C3' C:DG12 4.3 44.1 1.0 C4' C:DG12 4.3 45.9 1.0 O5' A:DGT1001 4.6 0.7 0.8 OD2 A:ASP653 4.8 62.2 1.0 C1' A:DGT1001 4.8 0.7 0.8 O3' C:DG11 4.9 48.5 1.0 C2' A:DGT1001 5.0 0.4 0.8 OE1 A:GLU831 5.0 68.9 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Fragment Dna Polymerase I From Bacillus Stearothermophilus with Duplex Dna, Dgtp and Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1003 b:0.5 occ:0.80 O2G A:DGT1001 2.3 0.2 0.8 O2B A:DGT1001 2.4 0.1 0.8 PG A:DGT1001 3.4 0.5 0.8 PB A:DGT1001 3.6 0.3 0.8 O3G A:DGT1001 3.7 0.0 0.8 O3B A:DGT1001 3.8 0.2 0.8 O1B A:DGT1001 4.4 0.9 0.8 O1A A:DGT1001 4.6 0.4 0.8 O1G A:DGT1001 4.7 0.2 0.8 O3A A:DGT1001 4.9 0.3 0.8 OD1 A:ASP865 5.0 74.8 1.0

J.H.Gan, R.Abdur, H.H.Liu, J.Sheng, J.Caton-Willians, A.S.Soares, Z.Huang. Biochemical and Structural Insights Into the Fidelity of Bacillus Stearothermophilus Dna Polymerase To Be Published.