Manganese in PDB 4klq: Observing A Dna Polymerase Choose Right From Wrong.

All present enzymatic activity of Observing A Dna Polymerase Choose Right From Wrong.:
2.7.7.7;

The structure of Observing A Dna Polymerase Choose Right From Wrong., PDB code: 4klq was solved by B.D.Freudenthal, W.A.Beard, D.D.Shock, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.04 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	54.822, 78.412, 54.962, 90.00, 113.24, 90.00
R / Rfree (%)	21.4 / 26.7

The structure of Observing A Dna Polymerase Choose Right From Wrong. also contains other interesting chemical elements:

Sodium

(Na)

3 atoms

The binding sites of Manganese atom in the Observing A Dna Polymerase Choose Right From Wrong. (pdb code 4klq). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Observing A Dna Polymerase Choose Right From Wrong., PDB code: 4klq:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in the Observing A Dna Polymerase Choose Right From Wrong.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Observing A Dna Polymerase Choose Right From Wrong. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn403 b:25.6 occ:0.70 OD1 A:ASP192 2.1 30.8 1.0 O P:HOH120 2.2 31.8 0.7 OD2 A:ASP190 2.2 29.3 1.0 OD2 A:ASP256 2.2 37.1 1.0 O A:HOH631 2.3 30.0 0.7 O2A A:DTP401 2.3 14.7 0.7 OP2 P:DA11 2.6 43.2 0.3 CG A:ASP190 3.2 27.8 1.0 CG A:ASP192 3.3 30.3 1.0 PA A:DTP401 3.4 33.4 0.7 CG A:ASP256 3.4 32.8 1.0 O1A A:DTP401 3.6 32.1 0.7 OD1 A:ASP190 3.7 25.8 1.0 MN A:MN404 3.7 37.0 1.0 OD2 A:ASP192 3.8 24.3 1.0 P P:DA11 3.9 43.5 0.3 O A:HOH576 3.9 36.4 1.0 O5' A:DTP401 3.9 39.3 0.7 CB A:ASP256 4.1 24.9 1.0 O5' P:DA11 4.2 35.5 0.3 C5' P:DA11 4.2 39.7 0.3 C3' P:DC10 4.2 43.5 0.3 C3' P:DC10 4.3 41.9 0.7 O3' P:DC10 4.3 46.3 0.7 C5' A:DTP401 4.4 37.9 0.7 O3' P:DC10 4.4 44.4 0.3 OD1 A:ASP256 4.4 28.9 1.0 CB A:ASP192 4.5 26.9 1.0 C5' P:DC10 4.6 36.8 0.3 CB A:ASP190 4.6 23.3 1.0 C5' P:DC10 4.6 38.1 0.7 C4' P:DC10 4.7 41.2 0.3 OP1 P:DC10 4.8 33.0 0.7 OP1 P:DC10 4.8 32.0 0.3 C4' P:DC10 4.8 43.4 0.7 O5' P:DC10 4.8 36.8 0.7 O5' P:DC10 4.8 37.7 0.3 O3A A:DTP401 4.9 33.4 0.7 O A:MET191 4.9 22.8 1.0 O3G A:DTP401 5.0 38.0 0.7

Manganese binding site 2 out of 3 in the Observing A Dna Polymerase Choose Right From Wrong.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Observing A Dna Polymerase Choose Right From Wrong. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn404 b:37.0 occ:1.00 O2B A:DTP401 2.0 33.7 0.7 OD1 A:ASP190 2.0 25.8 1.0 OD2 A:ASP192 2.2 24.3 1.0 O2A A:DTP401 2.2 14.7 0.7 O3G A:DTP401 2.2 38.0 0.7 O32 A:PPV402 2.3 36.0 0.3 O11 A:PPV402 2.4 35.5 0.3 O A:HOH521 2.4 36.9 1.0 CG A:ASP190 3.0 27.8 1.0 PB A:DTP401 3.0 39.0 0.7 CG A:ASP192 3.1 30.3 1.0 PA A:DTP401 3.3 33.4 0.7 OD2 A:ASP190 3.4 29.3 1.0 PG A:DTP401 3.4 34.6 0.7 OD1 A:ASP192 3.4 30.8 1.0 P2 A:PPV402 3.5 34.2 0.3 O3A A:DTP401 3.5 33.4 0.7 P1 A:PPV402 3.7 36.8 0.3 O3B A:DTP401 3.7 44.6 0.7 MN A:MN403 3.7 25.6 0.7 O12 A:PPV402 3.8 32.5 0.3 O1G A:DTP401 3.9 35.9 0.7 OPP A:PPV402 4.0 40.8 0.3 O A:ASP190 4.1 24.3 1.0 C5' A:DTP401 4.1 37.9 0.7 N A:ASP190 4.2 27.5 1.0 CB A:ASP190 4.3 23.3 1.0 O31 A:PPV402 4.3 36.1 0.3 C A:ASP190 4.3 28.4 1.0 O5' A:DTP401 4.3 39.3 0.7 C5' P:DA11 4.3 39.7 0.3 O1A A:DTP401 4.3 32.1 0.7 O1B A:DTP401 4.4 35.4 0.7 OG A:SER180 4.4 32.0 1.0 CB A:ASP192 4.5 26.9 1.0 CA A:ASP190 4.5 20.8 1.0 O A:HOH509 4.6 25.9 1.0 N A:SER180 4.6 36.3 1.0 O22 A:PPV402 4.7 33.3 0.3 O2G A:DTP401 4.7 37.8 0.7 CA A:GLY179 4.8 35.9 1.0 O21 A:PPV402 4.8 37.4 0.3 N A:ASP192 4.8 19.7 1.0 O A:HOH631 4.9 30.0 0.7 N A:MET191 4.9 27.4 1.0

Manganese binding site 3 out of 3 in the Observing A Dna Polymerase Choose Right From Wrong.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Observing A Dna Polymerase Choose Right From Wrong. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn405 b:30.0 occ:1.00 NE2 A:HIS51 2.2 42.5 1.0 CD2 A:HIS51 3.1 44.8 1.0 CE1 A:HIS51 3.2 43.8 1.0 ND1 A:HIS51 4.2 34.8 1.0 CG A:HIS51 4.2 43.1 1.0

B.D.Freudenthal, W.A.Beard, D.D.Shock, S.H.Wilson. Observing A Dna Polymerase Choose Right From Wrong. Cell(Cambridge,Mass.) V. 154 157 2013.
ISSN: ISSN 0092-8674
PubMed: 23827680
DOI: 10.1016/J.CELL.2013.05.048