Magnesium in PDB 7kt7: Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN)

All present enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN):
2.7.7.7;

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN), PDB code: 7kt7 was solved by J.A.Jamsen, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.95 / 1.76
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	59.908, 68.531, 110.589, 90, 90, 90
R / Rfree (%)	16.1 / 18.7

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Sodium	(Na)	1 atom

The binding sites of Magnesium atom in the Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) (pdb code 7kt7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN), PDB code: 7kt7:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:13.1 occ:1.00 OP1 P:8OG5 1.9 20.8 0.5 OD2 A:ASP330 2.0 26.3 1.0 OD2 A:ASP418 2.2 16.9 1.0 OD1 A:ASP332 2.2 15.8 1.0 O P:HOH201 2.5 21.2 1.0 O3' P:DA4 2.5 16.7 0.5 O2A A:8DG501 2.5 11.2 0.5 P P:8OG5 2.6 21.6 0.5 O3' P:DA4 2.6 16.7 0.5 CG A:ASP330 3.0 24.4 1.0 CG A:ASP332 3.3 15.5 1.0 CG A:ASP418 3.3 17.4 1.0 OD1 A:ASP330 3.4 22.4 1.0 OP2 P:8OG5 3.4 20.7 0.5 PA A:8DG501 3.4 12.0 0.5 C3' P:DA4 3.6 15.8 0.5 OD2 A:ASP332 3.6 16.1 1.0 MG A:MG503 3.7 20.4 1.0 C3' P:DA4 3.8 15.8 0.5 O1A A:8DG501 3.8 10.5 0.5 O5' A:8DG501 3.9 9.8 0.5 C4' P:DA4 3.9 15.9 0.5 C5' P:DA4 3.9 17.2 0.5 O5' P:8OG5 3.9 19.4 0.5 CB A:ASP418 4.0 15.0 1.0 C4' P:DA4 4.0 16.4 0.5 C5' P:DA4 4.0 17.2 0.5 O A:HOH677 4.1 29.9 0.5 OD1 A:ASP418 4.2 16.4 1.0 C5' P:8OG5 4.3 19.8 0.5 C5' A:8DG501 4.3 9.2 0.5 CB A:ASP330 4.4 21.3 1.0 CE1 A:HIS329 4.5 41.5 0.5 NH2 A:ARG416 4.6 16.0 1.0 CZ3 A:TRP434 4.6 16.3 1.0 CB A:ASP332 4.6 11.8 1.0 OP1 P:DA4 4.6 14.6 0.5 OP1 P:DA4 4.7 14.7 0.5 O5' P:DA4 4.7 16.5 0.5 O5' P:DA4 4.8 16.4 0.5 O32 A:PPV509 4.8 23.2 0.3 O1G A:8DG501 4.8 21.9 0.5 C2' P:DA4 4.9 14.7 0.5 O3A A:8DG501 4.9 18.8 0.5 O31 A:PPV509 5.0 19.1 0.3

Magnesium binding site 2 out of 2 in the Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:20.4 occ:1.00 O2A A:8DG501 1.9 11.2 0.5 O1B A:8DG501 2.0 16.4 0.5 OD1 A:ASP330 2.0 22.4 1.0 O21 A:PPV509 2.0 17.3 0.3 O A:HOH657 2.0 19.6 1.0 O1G A:8DG501 2.1 21.9 0.5 OD2 A:ASP332 2.1 16.1 1.0 O32 A:PPV509 2.2 23.2 0.3 OP1 P:8OG5 2.6 20.8 0.5 P1 A:PPV509 3.1 19.2 0.3 PB A:8DG501 3.1 20.3 0.5 CG A:ASP330 3.1 24.4 1.0 CG A:ASP332 3.1 15.5 1.0 PA A:8DG501 3.1 12.0 0.5 O31 A:PPV509 3.2 19.1 0.3 PG A:8DG501 3.3 24.6 0.5 O3A A:8DG501 3.4 18.8 0.5 OD1 A:ASP332 3.5 15.8 1.0 OD2 A:ASP330 3.5 26.3 1.0 P2 A:PPV509 3.5 24.6 0.3 O3B A:8DG501 3.6 22.7 0.5 OPP A:PPV509 3.7 22.9 0.3 MG A:MG502 3.7 13.1 1.0 O A:HOH677 3.9 29.9 0.5 P P:8OG5 4.0 21.6 0.5 O A:ASP330 4.0 17.2 1.0 O2G A:8DG501 4.0 26.7 0.5 O A:HOH637 4.2 15.0 1.0 O5' A:8DG501 4.2 9.8 0.5 O12 A:PPV509 4.2 26.6 0.3 C A:ASP330 4.2 17.1 1.0 N A:GLY320 4.2 12.9 1.0 O1A A:8DG501 4.3 10.5 0.5 O A:HOH602 4.3 22.8 1.0 C5' A:8DG501 4.3 9.2 0.5 ND1 A:HIS329 4.3 39.6 0.5 CB A:ASP330 4.4 21.3 1.0 O11 A:PPV509 4.4 18.6 0.3 O5' P:8OG5 4.4 19.4 0.5 CB A:ASP332 4.4 11.8 1.0 O2B A:8DG501 4.5 18.1 0.5 O3G A:8DG501 4.5 25.4 0.5 CE1 A:HIS329 4.5 41.5 0.5 CA A:GLY319 4.5 12.8 1.0 C5' P:8OG5 4.6 19.8 0.5 CA A:ASP330 4.7 17.4 1.0 N A:ASP330 4.7 16.7 1.0 OP2 P:8OG5 4.7 20.7 0.5 O22 A:PPV509 4.7 24.5 0.3 N A:VAL331 4.8 15.8 1.0 O P:HOH201 4.8 21.2 1.0 N A:ASP332 4.8 12.0 1.0 C A:VAL331 4.9 14.0 1.0 C A:GLY319 4.9 13.8 1.0

J.A.Jamsen, A.Sassa, D.D.Shock, W.A.Beard, S.H.Wilson. Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) To Be Published.