Zinc in PDB 5f7q: Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator

The structure of Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator, PDB code: 5f7q was solved by S.H.Light, W.F.Anderson, Center For Structural Genomics Of Infectiousdiseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	73.672, 180.257, 79.860, 90.00, 89.97, 90.00
R / Rfree (%)	18.2 / 21.8

The binding sites of Zinc atom in the Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator (pdb code 5f7q). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator, PDB code: 5f7q:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn501 b:45.1 occ:1.00 ND1 C:HIS244 2.1 46.4 1.0 SG C:CYS261 2.3 47.9 1.0 SG C:CYS254 2.3 50.2 1.0 SG C:CYS256 2.3 46.0 1.0 CE1 C:HIS244 3.0 46.9 1.0 CG C:HIS244 3.1 44.1 1.0 CB C:CYS254 3.2 50.6 1.0 CB C:CYS261 3.2 43.7 1.0 CB C:CYS256 3.2 48.8 1.0 CB C:HIS244 3.5 43.4 1.0 CA C:HIS244 4.0 42.5 1.0 NE2 C:GLN258 4.1 42.3 1.0 NE2 C:HIS244 4.2 46.5 1.0 N C:CYS256 4.2 49.6 1.0 CD2 C:HIS244 4.2 45.2 1.0 CA C:CYS256 4.3 50.0 1.0 CA C:CYS254 4.6 51.9 1.0 CA C:CYS261 4.7 43.5 1.0 CB C:GLN258 4.7 43.2 1.0 CD1 E:PHE358 4.8 41.6 1.0 C C:CYS254 4.9 52.1 1.0 C C:HIS244 4.9 43.0 1.0 O C:HIS244 5.0 46.4 1.0

Zinc binding site 2 out of 4 in the Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn501 b:45.9 occ:1.00 ND1 E:HIS244 2.2 49.1 1.0 SG E:CYS256 2.3 49.9 1.0 SG E:CYS261 2.3 45.1 1.0 SG E:CYS254 2.3 50.4 1.0 CE1 E:HIS244 3.1 46.2 1.0 CG E:HIS244 3.2 45.9 1.0 CB E:CYS254 3.2 55.0 1.0 CB E:CYS261 3.2 47.2 1.0 CB E:CYS256 3.3 51.9 1.0 CB E:HIS244 3.5 43.4 1.0 CA E:HIS244 4.0 43.7 1.0 NE2 E:GLN258 4.2 41.8 1.0 NE2 E:HIS244 4.2 46.1 1.0 N E:CYS256 4.2 51.4 1.0 CD2 E:HIS244 4.3 46.1 1.0 CA E:CYS256 4.3 51.5 1.0 CA E:CYS254 4.6 53.8 1.0 CA E:CYS261 4.7 46.8 1.0 CB E:GLN258 4.7 45.0 1.0 C E:CYS254 4.9 54.7 1.0 C E:HIS244 4.9 44.0 1.0 O E:GLY243 4.9 43.6 1.0 CD1 C:PHE358 5.0 44.5 1.0

Zinc binding site 3 out of 4 in the Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn501 b:47.5 occ:1.00 ND1 J:HIS244 2.2 50.2 1.0 SG J:CYS261 2.3 45.2 1.0 SG J:CYS256 2.3 50.7 1.0 SG J:CYS254 2.3 52.3 1.0 CE1 J:HIS244 3.1 48.7 1.0 CG J:HIS244 3.2 45.7 1.0 CB J:CYS256 3.2 50.6 1.0 CB J:CYS254 3.2 54.6 1.0 CB J:CYS261 3.2 47.6 1.0 CB J:HIS244 3.5 43.0 1.0 CA J:HIS244 4.0 42.5 1.0 N J:CYS256 4.1 49.7 1.0 NE2 J:HIS244 4.2 49.1 1.0 CA J:CYS256 4.2 49.7 1.0 NE2 J:GLN258 4.2 42.5 1.0 CD2 J:HIS244 4.3 46.9 1.0 CA J:CYS254 4.6 52.5 1.0 CA J:CYS261 4.7 46.4 1.0 CB J:GLN258 4.8 44.9 1.0 C J:CYS254 4.9 53.9 1.0 C J:HIS244 4.9 43.0 1.0 CD1 L:PHE358 4.9 44.7 1.0 N J:HIS244 5.0 42.9 1.0 C J:CYS256 5.0 48.6 1.0

Zinc binding site 4 out of 4 in the Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Rok Repressor LMO0178 From Listeria Monocytogenes Bound to Operator within 5.0Å range: probe atom residue distance (Å) B Occ L:Zn501 b:46.1 occ:1.00 ND1 L:HIS244 2.1 45.9 1.0 SG L:CYS254 2.3 50.2 1.0 SG L:CYS261 2.3 48.1 1.0 SG L:CYS256 2.3 47.8 1.0 CE1 L:HIS244 3.0 46.0 1.0 CG L:HIS244 3.1 42.3 1.0 CB L:CYS261 3.2 45.0 1.0 CB L:CYS254 3.2 50.3 1.0 CB L:CYS256 3.3 47.2 1.0 CB L:HIS244 3.4 41.8 1.0 CA L:HIS244 4.0 41.3 1.0 NE2 L:GLN258 4.0 43.7 1.0 NE2 L:HIS244 4.2 44.7 1.0 N L:CYS256 4.2 50.5 1.0 CD2 L:HIS244 4.2 44.7 1.0 CA L:CYS256 4.3 50.1 1.0 CA L:CYS254 4.6 52.2 1.0 CA L:CYS261 4.7 44.3 1.0 CB L:GLN258 4.7 43.0 1.0 CD1 J:PHE358 4.8 42.3 1.0 C L:HIS244 4.9 41.5 1.0 O L:HIS244 4.9 43.4 1.0 C L:CYS254 4.9 51.0 1.0 O L:GLY243 4.9 40.3 1.0

S.H.Light, L.A.Cahoon, A.S.Halavaty, N.E.Freitag, W.F.Anderson. Structure to Function of An Alpha-Glucan Metabolic Pathway That Promotes Listeria Monocytogenes Pathogenesis. Nat Microbiol V. 2 16202 2016.
ISSN: ESSN 2058-5276
PubMed: 27819654
DOI: 10.1038/NMICROBIOL.2016.202