Calcium in PDB 6vf8: Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min)

All present enzymatic activity of Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min):
2.7.7.7;

The structure of Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min), PDB code: 6vf8 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)	34.94 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.101, 62.271, 118.637, 90, 90, 90
R / Rfree (%)	16.8 / 19.2

The structure of Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min) also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Calcium atom in the Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min) (pdb code 6vf8). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min), PDB code: 6vf8:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:16.8 occ:1.00 OD2 A:ASP330 2.2 28.0 1.0 OD1 A:ASP332 2.3 19.6 1.0 OD2 A:ASP418 2.3 23.6 1.0 O P:HOH101 2.4 22.2 1.0 O A:HOH697 2.4 24.6 1.0 O3G A:8GT505 2.5 20.5 1.0 CG A:ASP330 3.1 25.1 1.0 OD1 A:ASP330 3.2 25.4 1.0 CG A:ASP332 3.3 19.9 1.0 CG A:ASP418 3.4 22.1 1.0 PG A:8GT505 3.5 25.0 1.0 OD2 A:ASP332 3.7 22.1 1.0 CA A:CA504 3.8 18.1 1.0 O2G A:8GT505 3.8 41.1 1.0 O1G A:8GT505 3.9 29.8 1.0 O A:HOH690 4.0 44.9 1.0 CB A:ASP418 4.2 17.2 1.0 OD1 A:ASP418 4.3 18.4 1.0 CE1 A:HIS329 4.3 35.3 1.0 OP1 P:DA4 4.4 21.6 1.0 CB A:ASP330 4.5 20.0 1.0 NH2 A:ARG416 4.6 17.1 1.0 CB A:ASP332 4.6 15.6 1.0 CZ3 A:TRP434 4.8 33.3 1.0 O3B A:8GT505 4.9 28.9 1.0 NE2 A:HIS329 4.9 25.9 1.0

Calcium binding site 2 out of 2 in the Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca504 b:18.1 occ:1.00 OD1 A:ASP330 2.1 25.4 1.0 O2B A:8GT505 2.2 18.5 1.0 OD2 A:ASP332 2.3 22.1 1.0 O3G A:8GT505 2.3 20.5 1.0 O1A A:8GT505 2.4 24.2 1.0 O A:HOH664 2.4 20.8 1.0 CG A:ASP330 3.3 25.1 1.0 CG A:ASP332 3.3 19.9 1.0 O A:ASP330 3.4 28.9 1.0 PB A:8GT505 3.4 23.5 1.0 PA A:8GT505 3.6 28.1 1.0 PG A:8GT505 3.6 25.0 1.0 OD1 A:ASP332 3.7 19.6 1.0 O3B A:8GT505 3.7 28.9 1.0 O3A A:8GT505 3.8 29.4 1.0 CA A:CA503 3.8 16.8 1.0 OD2 A:ASP330 3.9 28.0 1.0 C A:ASP330 3.9 23.2 1.0 O A:HOH610 4.2 16.5 1.0 N A:GLY320 4.3 17.0 1.0 ND1 A:HIS329 4.4 29.6 1.0 N A:ASP330 4.4 20.0 1.0 O2G A:8GT505 4.4 41.1 1.0 O A:HOH686 4.4 24.1 1.0 O2A A:8GT505 4.4 38.1 1.0 CE1 A:HIS329 4.5 35.3 1.0 CB A:ASP330 4.5 20.0 1.0 CA A:ASP330 4.5 18.8 1.0 O1G A:8GT505 4.6 29.8 1.0 CA A:GLY319 4.6 16.4 1.0 N A:VAL331 4.7 17.6 1.0 CB A:ASP332 4.7 15.6 1.0 O A:HOH690 4.7 44.9 1.0 O1B A:8GT505 4.7 29.6 1.0 O5' A:8GT505 4.8 29.2 1.0 N A:ASP332 4.8 15.4 1.0 CA A:VAL331 4.9 16.1 1.0 C A:VAL331 5.0 17.3 1.0

J.A.Jamsen, A.Sassa, D.D.Shock, W.A.Beard, S.H.Wilson. Dna Polymerase Mu, 8-Oxorgtp:Ct Pre-Catalytic Ternary Complex, 20 Mm CA2+ (120 Min) To Be Published.