Zinc in PDB 4jom: Structure of E. Coli Pol III 3MPHP Mutant

All present enzymatic activity of Structure of E. Coli Pol III 3MPHP Mutant:
2.7.7.7;

The structure of Structure of E. Coli Pol III 3MPHP Mutant, PDB code: 4jom was solved by T.Barros, J.Guenther, B.Kelch, J.Anaya, A.Prabhakar, M.O'donnell, J.Kuriyan, M.H.Lamers, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.95 / 2.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	82.429, 98.944, 139.879, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / 24.5

The binding sites of Zinc atom in the Structure of E. Coli Pol III 3MPHP Mutant (pdb code 4jom). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of E. Coli Pol III 3MPHP Mutant, PDB code: 4jom:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of E. Coli Pol III 3MPHP Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of E. Coli Pol III 3MPHP Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1004 b:78.8 occ:1.00 HE2 A:HIS44 1.3 64.9 0.8 O4 A:PO41002 1.9 92.0 1.0 OD2 A:ASP19 2.0 44.6 1.0 NE2 A:HIS203 2.1 40.6 1.0 NE2 A:HIS44 2.1 54.1 0.8 CG A:ASP19 2.8 44.8 1.0 OD1 A:ASP19 3.1 48.3 1.0 CD2 A:HIS44 3.1 50.2 0.8 CD2 A:HIS203 3.1 37.4 1.0 CE1 A:HIS203 3.1 39.9 1.0 CE1 A:HIS44 3.1 51.7 0.8 HD2 A:HIS44 3.2 60.3 0.8 HD2 A:HIS203 3.2 44.8 1.0 HE1 A:HIS203 3.3 47.9 1.0 HE1 A:HIS44 3.3 62.0 0.8 P A:PO41002 3.3 0.7 1.0 HE1 A:TYR234 3.4 52.5 1.0 CE1 A:HIS12 3.7 46.4 1.0 O2 A:PO41002 3.8 66.4 1.0 ND1 A:HIS12 3.9 40.0 1.0 HE1 A:HIS12 3.9 55.6 1.0 NE2 A:HIS12 4.0 45.6 1.0 OH A:TYR234 4.0 41.9 1.0 HD1 A:HIS12 4.1 48.0 1.0 O1 A:PO41002 4.1 0.3 1.0 CB A:ASP19 4.1 36.5 1.0 CG A:HIS12 4.2 33.4 1.0 CE1 A:TYR234 4.2 43.8 1.0 HH A:TYR234 4.2 50.3 1.0 ND1 A:HIS203 4.2 35.1 1.0 ND1 A:HIS44 4.2 52.0 0.8 CG A:HIS44 4.2 48.7 0.8 CG A:HIS203 4.2 34.7 1.0 CD2 A:HIS12 4.3 41.0 1.0 HB2 A:ASP19 4.3 43.8 1.0 HD11 A:ILE18 4.3 59.9 1.0 O3 A:PO41002 4.4 0.7 1.0 HG13 A:ILE18 4.4 56.0 1.0 HB3 A:ASP19 4.4 43.8 1.0 ZN A:ZN1005 4.5 87.9 1.0 CZ A:TYR234 4.6 36.2 1.0 HD2 A:HIS12 4.8 49.2 1.0 HB3 A:SER16 4.9 50.5 1.0 HB3 A:HIS12 4.9 37.5 1.0 HB2 A:HIS12 5.0 37.5 1.0 HD1 A:HIS203 5.0 42.2 1.0 HD1 A:HIS44 5.0 62.4 0.8 CB A:HIS12 5.0 31.3 1.0

Zinc binding site 2 out of 2 in the Structure of E. Coli Pol III 3MPHP Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of E. Coli Pol III 3MPHP Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1005 b:87.9 occ:1.00 OD2 A:ASP69 2.0 45.0 1.0 NE2 A:HIS10 2.0 53.9 1.0 NE2 A:HIS12 2.0 45.6 1.0 CD2 A:HIS10 2.9 54.5 1.0 CE1 A:HIS10 3.0 43.1 1.0 CE1 A:HIS12 3.0 46.4 1.0 CD2 A:HIS12 3.0 41.0 1.0 HD2 A:HIS10 3.0 65.3 1.0 CG A:ASP69 3.1 45.0 1.0 O2 A:PO41002 3.1 66.4 1.0 HE1 A:HIS12 3.2 55.6 1.0 HD2 A:HIS12 3.2 49.2 1.0 HE1 A:HIS10 3.3 51.8 1.0 OD1 A:ASP201 3.3 63.2 1.0 HE1 A:HIS203 3.4 47.9 1.0 OD1 A:ASP69 3.6 46.3 1.0 HE1 A:HIS44 3.8 62.0 0.8 CG A:HIS10 4.0 40.4 1.0 ND1 A:HIS10 4.0 44.5 1.0 P A:PO41002 4.0 0.7 1.0 O1 A:PO41002 4.0 0.3 1.0 CE1 A:HIS203 4.1 39.9 1.0 ND1 A:HIS12 4.1 40.0 1.0 HE2 A:HIS44 4.1 64.9 0.8 CE1 A:HIS44 4.1 51.7 0.8 CG A:HIS12 4.1 33.4 1.0 CB A:ASP69 4.3 31.2 1.0 NE2 A:HIS44 4.3 54.1 0.8 O4 A:PO41002 4.3 92.0 1.0 HB3 A:ASP69 4.4 37.4 1.0 CG A:ASP201 4.4 58.2 1.0 HG1 A:THR42 4.4 42.4 1.0 HB2 A:ASP69 4.5 37.4 1.0 ZN A:ZN1004 4.5 78.8 1.0 NE2 A:HIS203 4.5 40.6 1.0 HA A:ASP201 4.6 59.9 1.0 HG1 A:THR85 4.7 57.5 1.0 O A:THR42 4.8 39.9 1.0 HD1 A:HIS10 4.8 53.4 1.0 HD1 A:HIS12 4.9 48.0 1.0 OD2 A:ASP201 4.9 58.4 1.0

T.Barros, J.Guenther, B.Kelch, J.Anaya, A.Prabhakar, M.O Donnell, J.Kuriyan, M.H.Lamers. A Structural Role For the Php Domain in E. Coli Dna Polymerase III. Bmc Struct.Biol. V. 13 8 2013.
ISSN: ESSN 1472-6807
PubMed: 23672456
DOI: 10.1186/1472-6807-13-8