Zinc in PDB 5ho1: Mamb-Ctd

The structure of Mamb-Ctd, PDB code: 5ho1 was solved by N.Keren, R.Zarivach, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.94 / 2.53
Space group	P 21 2 21
Cell size a, b, c (Å), α, β, γ (°)	38.556, 49.828, 95.882, 90.00, 90.00, 90.00
R / Rfree (%)	24 / 29.4

The binding sites of Zinc atom in the Mamb-Ctd (pdb code 5ho1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Mamb-Ctd, PDB code: 5ho1:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Mamb-Ctd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mamb-Ctd within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:94.4 occ:1.00 OD1 A:ASP247 1.9 97.1 1.0 O A:HOH402 2.4 69.5 1.0 NE2 A:HIS245 2.4 95.4 1.0 CE1 A:HIS245 2.7 90.8 1.0 ND1 A:HIS283 2.7 96.6 1.0 CG A:ASP247 2.7 86.7 1.0 OD2 A:ASP247 2.9 91.7 1.0 CE1 A:HIS283 3.3 99.9 1.0 CG A:HIS283 3.4 92.4 1.0 CD2 A:HIS245 3.7 92.2 1.0 CB A:HIS283 3.9 84.5 1.0 ND1 A:HIS245 3.9 90.2 1.0 CB A:ASP247 4.1 74.9 1.0 NE2 A:HIS283 4.1 0.0 1.0 CD2 A:HIS283 4.2 95.5 1.0 CG A:HIS245 4.4 86.8 1.0 O A:LEU246 4.6 72.4 1.0 CA A:ASP247 4.8 70.3 1.0 C A:LEU246 5.0 70.7 1.0

Zinc binding site 2 out of 3 in the Mamb-Ctd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mamb-Ctd within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:0.4 occ:1.00 OD1 B:ASP247 2.1 95.6 1.0 ND1 B:HIS283 2.4 99.1 1.0 NE2 B:HIS245 2.5 1.0 1.0 CE1 B:HIS245 2.6 0.1 1.0 CE1 B:HIS283 3.0 1.0 1.0 CG B:ASP247 3.0 88.6 1.0 O B:HOH402 3.0 88.1 1.0 CG B:HIS283 3.2 92.6 1.0 OD2 B:ASP247 3.2 96.5 1.0 CB B:HIS283 3.8 85.9 1.0 CD2 B:HIS245 3.8 0.7 1.0 NE2 B:HIS283 3.8 0.5 1.0 ND1 B:HIS245 3.9 1.0 1.0 CD2 B:HIS283 4.0 98.2 1.0 CB B:ASP247 4.3 76.7 1.0 CG B:HIS245 4.5 0.6 1.0 O B:LEU246 4.7 77.0 1.0 CA B:ASP247 5.0 76.0 1.0

Zinc binding site 3 out of 3 in the Mamb-Ctd


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Mamb-Ctd within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:0.7 occ:1.00 OD1 B:ASP243 2.3 0.4 1.0 OD2 B:ASP243 2.7 0.3 1.0 CG B:ASP243 2.8 0.1 1.0 ND1 B:HIS278 3.1 0.9 1.0 OE2 B:GLU242 3.3 0.5 1.0 CE1 B:HIS278 3.6 0.1 1.0 CG B:GLU242 3.8 0.1 1.0 CD B:GLU242 4.0 0.2 1.0 CG B:HIS278 4.2 0.2 1.0 CB B:ASP243 4.4 0.7 1.0 CA B:HIS278 4.5 0.9 1.0 CB B:HIS278 4.7 0.3 1.0 NE2 B:HIS278 4.8 0.4 1.0 NH1 B:ARG280 4.9 0.4 1.0

R.Uebe, N.Keren-Khadmy, N.Zeytuni, E.Katzmann, Y.Navon, G.Davidov, R.Bitton, J.M.Plitzko, D.Schuler, R.Zarivach. The Dual Role of Mamb in Magnetosome Membrane Assembly and Magnetite Biomineralization. Mol. Microbiol. V. 107 542 2018.
ISSN: ESSN 1365-2958
PubMed: 29243866
DOI: 10.1111/MMI.13899