9QZQ

CryoEM structure of nanodisc-reconstituted human NTCP in complex with grafted NTCP_Nb1 and NabFab

Summary for 9QZQ

• Entry DOI: 10.2210/pdb9qzq/pdb
• EMDB information: 53474
• Descriptor: Sodium/bile acid cotransporter, NabFab - Heavy Chain, NabFab - Light Chain, ... (5 entities in total)
• Functional Keywords: solute carrier protein, bile salt transporter, hbv/ hdv receptor, sodium-coupled transport, transport protein
• Biological source: Homo sapiens (human); More
• Total number of polymer chains: 4
• Total formula weight: 102372.94

Authors

Yoon, D.,Nosol, K.,Rasouli, A.,Bang-Soerensen, R.,Irobalieva, R.N.,Liu, H.,Tajkhorshid, E.,Locher, K.P. (deposition date: 2025-04-23, release date: 2025-11-05)

Primary citation

Yoon, D.,Nosol, K.,Rasouli, A.,Bang-Sorensen, R.,Irobalieva, R.N.,Liu, H.,Tajkhorshid, E.,Locher, K.P.
Structure of nanobody-inhibited state of human bile salt transporter NTCP.
Structure, 2025

PubMed Abstract: Sodium-taurocholate co-transporting polypeptide (NTCP) is a sodium-dependent transporter mediating the hepatic uptake of bile salts and serving as the receptor of hepatitis B and D viruses. While previous studies identified binding sites for sodium ions and substrates, the mechanism remains controversial. We here report a high-resolution structure of NTCP in a closed-tunnel conformation that does not feature substrate binding sites but reveals evidence of two bound sodium ions. To evaluate the functional relevance of this state and gain insight into the transport mechanism, we performed μs-scale molecular dynamics simulations of NTCP starting from distinct conformations and substrate and ion configurations. We observed that both the closed-tunnel and open-tunnel conformations are highly stable, but that the sodium ions and bile salt molecules can shift positions without substantial conformational changes. Our results suggest that the closed-tunnel conformation might represents an inactive state rather than an essential component of a productive transport cycle.

PubMed: 41138719
DOI: 10.1016/j.str.2025.09.012

Experimental method

ELECTRON MICROSCOPY (3.11 Å)