7W7A

Heme exporter in complex with Mn-containing protoporphyrin IX, Mn-anomalous data

Summary for 7W7A

• Entry DOI: 10.2210/pdb7w7a/pdb
• Descriptor: Putative ABC transport system, ATP-binding protein, Putative ABC transport system integral membrane protein, (1S)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PENTANOYLOXY)METHYL]ETHYL OCTANOATE, ... (7 entities in total)
• Functional Keywords: heme efflux, heme detoxification, heme extraction, abc transporter, 4-helix tmd, membrane protein
• Biological source: Corynebacterium diphtheriae NCTC 13129; More
• Total number of polymer chains: 12
• Total formula weight: 366310.19

Authors

Hisano, T.,Nakamura, H.,Rahman, M.M.,Tosha, T.,Shirouzu, M.,Shiro, Y. (deposition date: 2021-12-04, release date: 2022-06-22, Last modification date: 2023-11-29)

Primary citation

Nakamura, H.,Hisano, T.,Rahman, M.M.,Tosha, T.,Shirouzu, M.,Shiro, Y.
Structural basis for heme detoxification by an ATP-binding cassette-type efflux pump in gram-positive pathogenic bacteria.
Proc.Natl.Acad.Sci.USA, 119:e2123385119-e2123385119, 2022

PubMed Abstract: Bacterial pathogens acquire heme from the host hemoglobin as an iron nutrient for their virulence and proliferation in blood. Concurrently, they encounter cytotoxic-free heme that escapes the heme-acquisition process. To overcome this toxicity, many gram-positive bacteria employ an ATP-binding cassette heme-dedicated efflux pump, HrtBA in the cytoplasmic membranes. Although genetic analyses have suggested that HrtBA expels heme from the bacterial membranes, the molecular mechanism of heme efflux remains elusive due to the lack of protein studies. Here, we show the biochemical properties and crystal structures of HrtBA, alone and in complex with heme or an ATP analog, and we reveal how HrtBA extracts heme from the membrane and releases it. HrtBA consists of two cytoplasmic HrtA ATPase subunits and two transmembrane HrtB permease subunits. A heme-binding site is formed in the HrtB dimer and is laterally accessible to heme in the outer leaflet of the membrane. The heme-binding site captures heme from the membrane using a glutamate residue of either subunit as an axial ligand and sequesters the heme within the rearranged transmembrane helix bundle. By ATP-driven HrtA dimerization, the heme-binding site is squeezed to extrude the bound heme. The mechanism sheds light on the detoxification of membrane-bound heme in this bacterium.

PubMed: 35767641
DOI: 10.1073/pnas.2123385119

Experimental method

X-RAY DIFFRACTION (3.204 Å)