Manganese in PDB 2jgu: Crystal Structure of Dna-Directed Dna Polymerase

All present enzymatic activity of Crystal Structure of Dna-Directed Dna Polymerase:
2.7.7.7;

The structure of Crystal Structure of Dna-Directed Dna Polymerase, PDB code: 2jgu was solved by D.U.Kim, H.S.Cho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.0 / 2.6
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	92.178, 127.923, 89.210, 90.00, 109.11, 90.00
R / Rfree (%)	27.49 / 27.11

The binding sites of Manganese atom in the Crystal Structure of Dna-Directed Dna Polymerase (pdb code 2jgu). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Dna-Directed Dna Polymerase, PDB code: 2jgu:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Dna-Directed Dna Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Dna-Directed Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1758 b:61.3 occ:1.00 OE2 A:GLU251 2.4 46.0 1.0 OD2 A:ASP4 2.5 57.8 1.0 OD1 A:ASP4 2.9 59.1 1.0 CG A:ASP4 3.0 54.2 1.0 OD2 A:ASP343 3.4 41.5 1.0 O A:VAL5 3.5 55.6 1.0 CD A:GLU251 3.6 50.4 1.0 N A:VAL5 4.1 52.1 1.0 CG A:ASP343 4.2 40.0 1.0 CB A:ASP4 4.3 51.7 1.0 CG A:GLU251 4.3 50.0 1.0 CB A:PRO340 4.3 38.5 1.0 OD1 A:ASP343 4.4 36.7 1.0 CG A:PRO340 4.4 37.7 1.0 C A:VAL5 4.4 54.6 1.0 OE1 A:GLU251 4.5 51.7 1.0 CE3 A:TRP342 4.6 36.1 1.0 CA A:ASP4 4.7 52.0 1.0 CA A:VAL5 4.9 51.9 1.0 C A:ASP4 4.9 52.2 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Dna-Directed Dna Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Dna-Directed Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1759 b:61.3 occ:1.00 OD1 A:ASP315 2.0 40.7 1.0 OE2 A:GLU143 2.1 74.5 1.0 OD1 A:ASP141 2.2 55.3 1.0 CD A:GLU143 2.9 74.5 1.0 OD2 A:ASP141 2.9 54.8 1.0 CG A:ASP141 2.9 54.5 1.0 OE1 A:GLU143 3.0 74.6 1.0 CG A:ASP315 3.2 47.3 1.0 O A:ILE142 3.3 62.6 1.0 OD2 A:ASP315 4.0 47.8 1.0 CB A:ASP315 4.2 50.7 1.0 OH A:TYR311 4.2 58.8 1.0 CG A:GLU143 4.3 72.4 1.0 CB A:ASP141 4.4 52.7 1.0 C A:ILE142 4.5 62.9 1.0 N A:ILE142 4.8 58.9 1.0 CZ A:TYR311 4.8 59.4 1.0 CE1 A:TYR311 4.8 60.6 1.0

S.W.Kim, D.U.Kim, J.K.Kim, L.W.Kang, H.S.Cho. Crystal Structure of Pfu, the High Fidelity Dna Polymerase From Pyrococcus Furiosus. Int.J.Biol.Macromol. V. 42 356 2008.
ISSN: ISSN 0141-8130
PubMed: 18355915
DOI: 10.1016/J.IJBIOMAC.2008.01.010