Zinc in PDB 6grg: E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound

The structure of E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound, PDB code: 6grg was solved by D.Ghilarov, C.E.M.Stevenson, D.Y.Travin, J.Piskunova, M.Serebryakova, A.Maxwell, D.M.Lawson, K.Severinov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	86.76 / 2.35
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	180.640, 83.280, 86.790, 90.00, 91.43, 90.00
R / Rfree (%)	16.5 / 22.6

The structure of E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound also contains other interesting chemical elements:

Magnesium	(Mg)	3 atoms
Chlorine	(Cl)	1 atom

The binding sites of Zinc atom in the E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound (pdb code 6grg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound, PDB code: 6grg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound within 5.0Å range: probe atom residue distance (Å) B Occ 1:Zn401 b:45.2 occ:1.00 SG 1:CYS192 2.3 41.5 1.0 SG 1:CYS292 2.3 48.7 1.0 SG 1:CYS290 2.3 44.7 1.0 SG 1:CYS195 2.4 38.5 1.0 CB 1:CYS292 3.3 51.6 1.0 CB 1:CYS290 3.4 47.1 1.0 CB 1:CYS192 3.4 49.2 1.0 CB 1:CYS195 3.6 38.4 1.0 N 1:CYS192 3.6 41.3 1.0 N 1:CYS195 3.7 38.0 1.0 CA 1:CYS192 4.0 44.2 1.0 CA 1:CYS195 4.1 36.8 1.0 N 1:CYS292 4.2 47.1 1.0 CA 1:CYS292 4.4 48.8 1.0 O 1:CYS192 4.5 37.5 1.0 C 1:CYS192 4.5 38.2 1.0 C 1:PHE194 4.6 40.5 1.0 C 1:PRO191 4.7 43.8 1.0 CA 1:CYS290 4.8 43.7 1.0 CA 1:PRO191 4.8 42.1 1.0 N 1:PHE194 4.9 44.0 1.0 CB 1:PHE194 4.9 42.8 1.0 N 1:SER291 4.9 56.0 1.0

Zinc binding site 2 out of 2 in the E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of E. Coli Microcin Synthetase Mcbbcd Complex with Pro-MCCB17, Adp and Phosphate Bound within 5.0Å range: probe atom residue distance (Å) B Occ 2:Zn401 b:44.4 occ:1.00 SG 2:CYS292 2.3 43.8 1.0 SG 2:CYS192 2.3 44.7 1.0 SG 2:CYS290 2.3 46.9 1.0 SG 2:CYS195 2.3 42.4 1.0 CB 2:CYS292 3.1 48.8 1.0 CB 2:CYS290 3.2 43.1 1.0 CB 2:CYS195 3.4 43.8 1.0 N 2:CYS195 3.4 44.8 1.0 CB 2:CYS192 3.5 44.3 1.0 N 2:CYS192 3.7 40.0 1.0 CA 2:CYS195 3.7 43.3 1.0 CA 2:CYS192 4.0 44.4 1.0 N 2:CYS292 4.1 45.1 1.0 CA 2:CYS292 4.2 45.8 1.0 C 2:CYS192 4.4 42.5 1.0 O 2:CYS192 4.4 41.8 1.0 C 2:PHE194 4.4 41.4 1.0 CA 2:CYS290 4.6 44.5 1.0 CB 2:PHE194 4.7 46.9 1.0 N 2:PHE194 4.8 48.4 1.0 C 2:PRO191 4.8 42.0 1.0 CA 2:PHE194 4.9 44.5 1.0 C 2:CYS290 4.9 44.0 1.0 ND1 2:HIS286 4.9 53.6 1.0

D.Ghilarov, C.E.M.Stevenson, D.Y.Travin, J.Piskunova, M.Serebryakova, A.Maxwell, D.M.Lawson, K.Severinov. Architecture of Microcin B17 Synthetase: An Octameric Protein Complex Converting A Ribosomally Synthesized Peptide Into A Dna Gyrase Poison. Mol. Cell V. 73 749 2019.
ISSN: ISSN 1097-4164
PubMed: 30661981
DOI: 10.1016/J.MOLCEL.2018.11.032