Zinc in PDB 5ylf: Mcr-1 Complex with D-Glucose

The structure of Mcr-1 Complex with D-Glucose, PDB code: 5ylf was solved by P.C.Wei, G.J.Song, M.Y.Shi, Y.F.Zhou, Y.Liu, J.Lei, P.Chen, L.Yin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.28 / 1.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	51.750, 72.820, 82.330, 90.00, 90.00, 90.00
R / Rfree (%)	14 / 17.6

The binding sites of Zinc atom in the Mcr-1 Complex with D-Glucose (pdb code 5ylf). 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 Mcr-1 Complex with D-Glucose, PDB code: 5ylf:

Zinc binding site 1 out of 1 in the Mcr-1 Complex with D-Glucose


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mcr-1 Complex with D-Glucose within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:8.9 occ:0.73 OD2 A:ASP250 2.0 9.1 1.0 OE1 A:GLU31 2.1 10.7 1.0 NE2 A:HIS251 2.1 6.9 1.0 O2P A:TPO70 2.2 9.9 1.0 OE2 A:GLU31 2.2 10.1 1.0 OG1 A:TPO70 2.2 7.1 1.0 CD A:GLU31 2.4 9.6 1.0 P A:TPO70 2.9 11.2 1.0 CE1 A:HIS251 3.0 7.2 1.0 CG A:ASP250 3.0 11.3 1.0 CD2 A:HIS251 3.1 5.7 1.0 OD1 A:ASP250 3.3 7.2 1.0 CB A:TPO70 3.5 9.0 1.0 N A:TPO70 3.8 6.5 1.0 CA A:TPO70 3.8 7.2 1.0 O3P A:TPO70 3.9 11.0 1.0 CG A:GLU31 4.0 7.0 1.0 CG2 A:TPO70 4.0 9.4 1.0 NE2 A:HIS263 4.0 11.1 1.0 O1P A:TPO70 4.1 13.8 1.0 ND1 A:HIS251 4.1 5.6 1.0 O A:HOH575 4.2 10.2 1.0 CG A:HIS251 4.2 5.2 1.0 OG1 A:THR32 4.2 10.1 1.0 CB A:ASP250 4.4 9.4 1.0 C A:SER69 4.4 8.8 1.0 CE1 A:HIS263 4.6 11.8 1.0 N A:THR32 4.6 6.3 1.0 CA A:GLU31 4.7 7.7 1.0 CD2 A:HIS180 4.7 12.7 1.0 CD2 A:HIS263 4.7 11.8 1.0 CB A:GLU31 4.7 6.1 1.0 NE2 A:HIS180 4.8 15.1 1.0 CA A:SER69 4.9 8.7 1.0

P.Wei, G.Song, M.Shi, Y.Zhou, Y.Liu, J.Lei, P.Chen, L.Yin. Substrate Analog Interaction with Mcr-1 Offers Insight Into the Rising Threat of the Plasmid-Mediated Transferable Colistin Resistance. Faseb J. V. 32 1085 2018.
ISSN: ESSN 1530-6860
PubMed: 29079699
DOI: 10.1096/FJ.201700705R