9e76

From Proteopedia

Yeast V-ATPase Vo proton channel bound to nanobody 1WVA25

Structural highlights

9e76 is a 19 chain structure with sequence from Lama glama and Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Electron Microscopy, Resolution 3.4Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

VA0D_YEAST Vacuolar ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells. The active enzyme consists of a catalytic V1 domain attached to an integral membrane V0 proton pore complex. This subunit is a non-integral membrane component of the membrane pore domain and is required for proper assembly of the V0 sector. Might be involved in the regulated assembly of V1 subunits onto the membrane sector or alternatively may prevent the passage of protons through V0 pores.

Publication Abstract from PubMed

The vacuolar ATPase (V-ATPase; V(1)V(o)) is a multi-subunit rotary nanomotor proton pump that acidifies organelles in virtually all eukaryotic cells, and extracellular spaces in some specialized tissues of higher organisms. Evidence suggests that metastatic breast cancers mislocalize V-ATPase to the plasma membrane to promote cell survival and facilitate metastasis, making the V-ATPase a potential drug target. We have generated a library of camelid single-domain antibodies (Nanobodies; Nbs) against lipid-nanodisc reconstituted yeast V-ATPase V(o) proton channel subcomplex. Here, we present an in-depth characterization of three anti-V(o) Nbs using biochemical and biophysical in vitro experiments. We find that the Nbs bind V(o) with high affinity, with one Nb inhibiting holoenzyme activity and another one preventing enzyme assembly. Using cryoEM, we find that two of the Nbs bind the c subunit ring of the V(o) on the lumen side of the complex. Additionally, we show that one of the Nbs raised against yeast V(o) can pull down human V-ATPase (HsV(1)V(o)). Our research demonstrates Nb versatility to target and modulate the activity of the V-ATPase, and highlights the potential for future therapeutic Nb development.

Monoclonal nanobodies alter the activity and assembly of the yeast vacuolar H(+)-ATPase.,Knight K, Park JB, Oot RA, Khan MM, Roh SH, Wilkens S bioRxiv [Preprint]. 2025 Jan 11:2025.01.10.632502. doi: , 10.1101/2025.01.10.632502. PMID:39829782^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Knight K, Park JB, Oot RA, Khan MM, Roh SH, Wilkens S. Monoclonal nanobodies alter the activity and assembly of the yeast vacuolar H(+)-ATPase. bioRxiv [Preprint]. 2025 Jan 11:2025.01.10.632502. PMID:39829782 doi:10.1101/2025.01.10.632502