Zinc in PDB 5hxd: Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157

The structure of Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157, PDB code: 5hxd was solved by Y.Ma, G.Bai, X.Zhang, J.Zhao, Z.Yuan, X.Kang, Z.Li, S.Mu, X.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.24 / 2.60
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	59.893, 59.893, 129.870, 90.00, 90.00, 120.00
R / Rfree (%)	17.2 / 24

The structure of Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157 also contains other interesting chemical elements:

Arsenic

(As)

2 atoms

The binding sites of Zinc atom in the Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157 (pdb code 5hxd). 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 Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157, PDB code: 5hxd:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157


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 Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:72.8 occ:0.76 OE2 A:GLU52 2.4 53.4 1.0 O1 A:CAC302 2.5 58.0 0.8 CD2 A:HIS157 2.8 54.9 1.0 ND1 A:HIS49 3.1 42.7 1.0 CD A:GLU52 3.2 48.9 1.0 OE1 A:GLU52 3.3 55.6 1.0 O A:ASP158 3.4 61.7 1.0 CE1 A:HIS49 3.4 47.5 1.0 CG A:HIS157 3.4 51.1 1.0 CB A:HIS157 3.5 50.5 1.0 AS A:CAC302 3.5 0.1 0.8 O2 A:CAC302 3.6 56.0 0.8 NE2 A:HIS157 4.0 50.0 1.0 OE2 A:GLU210 4.1 55.5 1.0 NH1 A:ARG89 4.1 48.8 1.0 OE1 A:GLU210 4.3 56.8 1.0 N A:ASP158 4.3 53.2 1.0 C2 A:CAC302 4.4 52.3 0.8 CG A:HIS49 4.4 45.0 1.0 C A:ASP158 4.5 56.8 1.0 CD A:GLU210 4.6 53.9 1.0 CG A:GLU52 4.7 42.9 1.0 ND1 A:HIS157 4.7 52.5 1.0 CA A:HIS157 4.7 51.1 1.0 NE2 A:HIS49 4.7 43.4 1.0 NH2 A:ARG89 4.7 42.6 1.0 CZ A:ARG89 4.8 46.4 1.0 CE1 A:HIS157 5.0 51.0 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157


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 Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:75.8 occ:0.61 O2 B:CAC302 2.6 59.4 0.6 OE1 B:GLU52 2.8 53.2 1.0 ND1 B:HIS49 2.9 44.5 1.0 OE2 B:GLU52 3.0 47.2 1.0 ND1 B:HIS157 3.1 52.0 1.0 CD B:GLU52 3.2 51.5 1.0 CE1 B:HIS49 3.4 49.6 1.0 O B:ASP158 3.6 53.0 1.0 NH1 B:ARG89 3.7 51.5 1.0 CG B:HIS157 3.9 47.7 1.0 AS B:CAC302 3.9 97.0 0.6 CB B:HIS157 4.0 47.9 1.0 CE1 B:HIS157 4.0 51.0 1.0 O1 B:CAC302 4.1 48.5 0.6 CG B:HIS49 4.2 48.6 1.0 CZ B:ARG89 4.4 52.2 1.0 NH2 B:ARG89 4.4 50.2 1.0 N B:ASP158 4.5 46.9 1.0 C1 B:CAC302 4.6 69.3 0.6 NE2 B:HIS49 4.7 44.8 1.0 CG B:GLU52 4.7 47.8 1.0 C B:ASP158 4.7 49.4 1.0 CB B:HIS49 4.8 47.0 1.0 CA B:HIS157 4.9 47.4 1.0 CD2 B:HIS157 5.0 48.8 1.0

Y.Ma, G.Bai, Y.Cui, J.Zhao, Z.Yuan, X.Liu. Crystal Structure of Murein-Tripeptide Amidase Mpaa From Escherichia Coli O157 at 2.6 Angstrom Resolution Protein Pept.Lett. V. 24 181 2017.
ISSN: ISSN 0929-8665
PubMed: 27894248
DOI: 10.2174/0929866523666161128153128