6QPT image
Deposition Date 2019-02-15
Release Date 2019-11-06
Last Version Date 2024-05-15
Entry Detail
PDB ID:
6QPT
Title:
Crystal structure of nitrite bound synthetic core domain of nitrite reductase from Ralstonia pickettii (residues 1-331)
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.90 Å
R-Value Free:
0.22
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
C 2 2 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Copper-containing nitrite reductase
Chain IDs:A, B, C, D, E, F
Chain Length:331
Number of Molecules:6
Biological Source:Ralstonia pickettii
Primary Citation
Unexpected Roles of a Tether Harboring a Tyrosine Gatekeeper Residue in Modular Nitrite Reductase Catalysis.
Acs Catalysis 9 6087 6099 (2019)
PMID: 32051772 DOI: 10.1021/acscatal.9b01266

Abstact

It is generally assumed that tethering enhances rates of electron harvesting and delivery to active sites in multidomain enzymes by proximity and sampling mechanisms. Here, we explore this idea in a tethered 3-domain, trimeric copper-containing nitrite reductase. By reverse engineering, we find that tethering does not enhance the rate of electron delivery from its pendant cytochrome c to the catalytic copper-containing core. Using a linker that harbors a gatekeeper tyrosine in a nitrite access channel, the tethered haem domain enables catalysis by other mechanisms. Tethering communicates the redox state of the haem to the distant T2Cu center that helps initiate substrate binding for catalysis. It also tunes copper reduction potentials, suppresses reductive enzyme inactivation, enhances enzyme affinity for substrate, and promotes intercopper electron transfer. Tethering has multiple unanticipated beneficial roles, the combination of which fine-tunes function beyond simplistic mechanisms expected from proximity and restrictive sampling models.

Legend

Protein

Chemical

Disease

Primary Citation of related structures