Magnesium in PDB 1xi1: PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form

All present enzymatic activity of PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form:
2.7.7.7;

The structure of PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form, PDB code: 1xi1 was solved by S.Kamtekar, A.J.Berman, J.Wang, J.M.Lazaro, M.De Vega, L.Blanco, M.Salas, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.71 / 2.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	60.557, 170.563, 68.813, 90.00, 106.99, 90.00
R / Rfree (%)	24.3 / 27.7

The binding sites of Magnesium atom in the PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form (pdb code 1xi1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form, PDB code: 1xi1:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg576 b:85.0 occ:1.00 OD2 A:ASP169 2.4 69.0 1.0 OD2 A:ASP145 2.7 92.1 1.0 O A:HOH633 2.7 70.4 1.0 OD1 A:ASP145 3.0 89.7 1.0 CG A:ASP145 3.1 88.9 1.0 O A:HOH634 3.2 65.2 1.0 CG A:ASP169 3.5 63.8 1.0 OH A:TYR148 3.6 0.6 1.0 OD1 A:ASP169 4.0 67.4 1.0 CD1 A:ILE146 4.2 74.0 1.0 CB A:TYR165 4.2 43.0 1.0 OE2 A:GLU14 4.2 67.5 1.0 O A:TYR165 4.3 49.4 1.0 CG1 A:ILE146 4.3 70.3 1.0 O A:HOH651 4.5 55.3 1.0 CZ A:TYR148 4.6 0.5 1.0 CB A:ASP145 4.6 86.1 1.0 C A:TYR165 4.6 46.8 1.0 CB A:ASP169 4.8 53.1 1.0 N A:ILE146 4.8 82.9 1.0 CG A:TYR165 4.9 47.5 1.0 CD A:GLU14 4.9 63.7 1.0 CD2 A:TYR165 4.9 51.7 1.0 CE2 A:TYR148 5.0 0.0 1.0 CA A:TYR165 5.0 46.2 1.0 OP2 C:DT5 5.0 0.7 1.0

Magnesium binding site 2 out of 2 in the PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of PHI29 Dna Polymerase Ssdna Complex, Monoclinic Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg576 b:97.8 occ:1.00 OH B:TYR148 2.7 1.0 1.0 OD2 B:ASP169 2.7 69.2 1.0 OD2 B:ASP145 3.1 91.6 1.0 OD1 B:ASP145 3.3 90.6 1.0 CG B:ASP169 3.6 63.4 1.0 CG B:ASP145 3.6 89.0 1.0 CZ B:TYR148 3.9 0.5 1.0 OD1 B:ASP169 3.9 65.8 1.0 OE2 B:GLU14 4.0 68.4 1.0 OP2 D:DT5 4.3 0.1 1.0 OP1 D:DT5 4.4 0.2 1.0 CE2 B:TYR148 4.4 0.2 1.0 P D:DT5 4.7 0.3 1.0 CB B:ASP169 4.8 52.5 1.0 CD B:GLU14 4.8 64.2 1.0 CE1 B:TYR148 4.8 0.8 1.0

J.Wang, S.Kamtekar, A.J.Berman, T.A.Steitz. Correction of X-Ray Intensities From Single Crystals Containing Lattice-Translocation Defects Acta Crystallogr.,Sect.D V. 61 67 2005.
ISSN: ISSN 0907-4449
PubMed: 15608377
DOI: 10.1107/S0907444904026721