Zinc in PDB 9gy1: High Resolution Crystal Structure of STM23 Peptidoglycan Hydrolase

The structure of High Resolution Crystal Structure of STM23 Peptidoglycan Hydrolase, PDB code: 9gy1 was solved by M.Kaus-Drobek, M.Nowacka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.32 / 1.35
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	52.69, 52.69, 77.49, 90, 90, 120
R / Rfree (%)	12.2 / 14.4

The binding sites of Zinc atom in the High Resolution Crystal Structure of STM23 Peptidoglycan Hydrolase (pdb code 9gy1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the High Resolution Crystal Structure of STM23 Peptidoglycan Hydrolase, PDB code: 9gy1:

Zinc binding site 1 out of 1 in the High Resolution Crystal Structure of STM23 Peptidoglycan Hydrolase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of High Resolution Crystal Structure of STM23 Peptidoglycan Hydrolase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:8.7 occ:1.00 OD1 A:ASP46 2.0 7.5 1.0 ND1 A:HIS123 2.1 7.5 1.0 NE2 A:HIS42 2.1 7.7 1.0 CG A:ASP46 2.7 8.0 1.0 OD2 A:ASP46 2.8 8.3 1.0 CE1 A:HIS123 3.0 6.8 1.0 CE1 A:HIS42 3.0 8.0 1.0 CD2 A:HIS42 3.1 7.6 1.0 CG A:HIS123 3.1 7.0 1.0 CB A:HIS123 3.5 7.5 1.0 NH1 A:ARG37 4.0 9.5 1.0 CA A:HIS123 4.1 7.2 1.0 NE2 A:HIS123 4.1 7.4 1.0 ND1 A:HIS42 4.2 8.4 1.0 CB A:ASP46 4.2 8.1 1.0 CD2 A:HIS123 4.2 7.7 1.0 CG A:HIS42 4.2 7.8 1.0 NH2 A:ARG37 4.3 9.3 1.0 O A:ILE45 4.3 8.3 1.0 C A:ILE45 4.5 8.1 1.0 NE2 A:HIS121 4.5 8.5 1.0 CZ A:ARG37 4.5 8.8 1.0 N A:ASP46 4.6 7.8 1.0 CA A:ASP46 4.6 7.5 1.0 CD2 A:HIS121 4.8 8.1 1.0

M.Kaus-Drobek, M.Nowacka, M.Gewartowska, M.Korzeniowska Nee Wiweger, M.R.Jensen, T.Moretro, E.Heir, E.Nowak, I.Sabala. From Discovery to Potential Application: Engineering A Novel M23 Peptidase to Combat Listeria Monocytogenes. Sci Rep V. 15 15628 2025.
ISSN: ESSN 2045-2322
PubMed: 40325189
DOI: 10.1038/S41598-025-99141-2