Zinc in PDB 6u2a: Shya Endopeptidase From Vibrio Cholera (Open Form)

All present enzymatic activity of Shya Endopeptidase From Vibrio Cholera (Open Form):
3.4.24.75;

The structure of Shya Endopeptidase From Vibrio Cholera (Open Form), PDB code: 6u2a was solved by M.A.Saper, A.Kelley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.58 / 2.30
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	75.272, 82.492, 82.522, 90.00, 102.69, 90.00
R / Rfree (%)	25.4 / 29.4

The binding sites of Zinc atom in the Shya Endopeptidase From Vibrio Cholera (Open Form) (pdb code 6u2a). 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 Shya Endopeptidase From Vibrio Cholera (Open Form), PDB code: 6u2a:

Zinc binding site 1 out of 1 in the Shya Endopeptidase From Vibrio Cholera (Open Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Shya Endopeptidase From Vibrio Cholera (Open Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:80.9 occ:1.00 NE2 A:HIS297 1.9 79.1 1.0 OD1 A:ASP301 2.1 81.2 1.0 OD2 A:ASP301 2.2 79.2 1.0 ND1 A:HIS378 2.4 63.2 1.0 CG A:ASP301 2.4 76.8 1.0 CE1 A:HIS297 2.7 72.2 1.0 HE1 A:HIS297 2.7 87.4 1.0 HB2 A:HIS378 3.0 70.7 1.0 CD2 A:HIS297 3.2 89.1 1.0 CE1 A:HIS378 3.3 64.0 1.0 CG A:HIS378 3.4 59.4 1.0 HE1 A:HIS378 3.5 77.6 1.0 HD2 A:HIS297 3.5 0.8 1.0 CB A:HIS378 3.6 58.2 1.0 NE2 A:HIS376 3.7 73.7 1.0 HA A:HIS378 3.9 75.6 1.0 ND1 A:HIS297 3.9 73.4 1.0 CB A:ASP301 3.9 77.7 1.0 CG A:HIS297 4.1 76.5 1.0 HD2 A:HIS376 4.2 91.2 1.0 HB2 A:ASP301 4.3 94.0 1.0 CA A:HIS378 4.3 62.3 1.0 CD2 A:HIS376 4.3 75.4 1.0 HB3 A:ASP301 4.4 94.0 1.0 HB3 A:HIS378 4.4 70.7 1.0 NE2 A:HIS378 4.5 63.5 1.0 CD2 A:HIS378 4.5 61.7 1.0 HA A:ASP301 4.6 95.5 1.0 HD1 A:HIS297 4.6 88.9 1.0 O A:GLY299 4.7 81.3 1.0 CA A:ASP301 4.7 78.9 1.0 HB3 A:SER280 4.7 0.3 1.0 CE1 A:HIS376 4.7 69.5 1.0 N A:ASP301 4.8 77.8 1.0 HE1 A:HIS376 4.9 84.2 1.0

J.H.Shin, A.G.Sulpizio, A.Kelley, L.Alvarez, S.G.Murphy, L.Fan, F.Cava, Y.Mao, M.A.Saper, T.Dorr. Structural Basis of Peptidoglycan Endopeptidase Regulation. Proc.Natl.Acad.Sci.Usa 2020.
ISSN: ESSN 1091-6490
PubMed: 32393643
DOI: 10.1073/PNAS.2001661117