Zinc in PDB 6a8l: Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis

The structure of Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis, PDB code: 6a8l was solved by F.Shang, J.Chen, L.Wang, Y.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.91 / 2.00
Space group	P 62
Cell size a, b, c (Å), α, β, γ (°)	90.037, 90.037, 86.181, 90.00, 90.00, 120.00
R / Rfree (%)	15.3 / 21.7

The binding sites of Zinc atom in the Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis (pdb code 6a8l). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis, PDB code: 6a8l:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn200 b:51.3 occ:1.00 NE2 A:HIS55 2.0 38.2 1.0 OE1 A:GLU64 2.2 41.7 1.0 NE2 A:HIS71 2.2 52.0 1.0 OD2 A:ASP53 2.3 45.4 1.0 CD2 A:HIS55 2.8 49.1 1.0 CD A:GLU64 3.0 45.8 1.0 OE2 A:GLU64 3.1 39.6 1.0 CE1 A:HIS71 3.1 49.7 1.0 CG A:ASP53 3.1 40.7 1.0 CE1 A:HIS55 3.1 44.7 1.0 O A:HOH413 3.2 44.6 1.0 CD2 A:HIS71 3.3 48.5 1.0 OD1 A:ASP53 3.4 41.4 1.0 CG A:HIS55 4.1 52.1 1.0 ND1 A:HIS55 4.2 43.6 1.0 ND1 A:HIS71 4.2 53.3 1.0 CB A:ASP53 4.4 36.5 1.0 CG A:HIS71 4.4 52.1 1.0 CG A:GLU64 4.4 45.0 1.0 CB A:GLU64 4.9 40.4 1.0 CZ A:PHE14 4.9 43.7 1.0 CE1 A:TYR106 4.9 29.3 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Nicotinamidase/ Pyrazinamidase Pnca From Bacillus Subtilis within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn200 b:36.1 occ:1.00 O B:HOH306 1.8 37.7 1.0 NE2 B:HIS55 2.0 31.5 1.0 OD2 B:ASP53 2.1 38.6 1.0 OE1 B:GLU64 2.1 34.8 1.0 NE2 B:HIS71 2.1 37.1 1.0 CG B:ASP53 2.9 32.9 1.0 CD2 B:HIS55 2.9 35.4 1.0 OD1 B:ASP53 2.9 35.7 1.0 CE1 B:HIS71 2.9 36.0 1.0 CD B:GLU64 3.1 35.5 1.0 CE1 B:HIS55 3.1 35.1 1.0 CD2 B:HIS71 3.1 34.5 1.0 OE2 B:GLU64 3.4 35.6 1.0 ND1 B:HIS71 4.0 38.2 1.0 CG B:HIS55 4.1 31.4 1.0 CG B:HIS71 4.1 37.1 1.0 ND1 B:HIS55 4.2 36.1 1.0 O B:HOH359 4.3 35.4 1.0 CB B:ASP53 4.3 35.3 1.0 CG B:GLU64 4.4 34.1 1.0 CB B:GLU64 4.7 35.6 1.0 CZ B:PHE14 4.8 38.7 1.0 ND2 B:ASN72 4.9 37.5 1.0 O B:HOH348 4.9 39.6 1.0 O B:HIS71 5.0 35.0 1.0 O B:HOH311 5.0 33.0 1.0

F.Shang, J.Chen, L.Wang, L.Jin, L.Zou, T.Bu, Y.Dong, N.C.Ha, K.H.Nam, C.Quan, Y.Xu. Crystal Structure of the Nicotinamidase/Pyrazinamidase Pnca From Bacillus Subtilis. Biochem. Biophys. Res. V. 503 2906 2018COMMUN..
ISSN: ESSN 1090-2104
PubMed: 30107912
DOI: 10.1016/J.BBRC.2018.08.067