9WXR | pdb_00009wxr

sensory rhodopsin I with its cognate transducer HtrI


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Cryo-EM structure of the SRI-HtrI complex reveals the cytoplasmic coupling in an archaeal phototaxis system.

Lim, G.Z.Lin, Y.E.Chen, P.C.Fu, H.Y.Yang, C.S.

(2026) Nat Commun 

  • DOI: https://doi.org/10.1038/s41467-026-72092-6
  • Primary Citation Related Structures: 
    9WXR

  • PubMed Abstract: 

    Sensory rhodopsins (SRs) in haloarchaea form complexes with their cognate transducers (Htrs) to produce wavelength-specific phototactic responses, yet similar architectures mediate distinct behaviors: SRI mediates attraction, SRII drives repulsion, whereas SRM modulates both responses. Until now, structural insight was limited to the Natronomonas pharaonis SRII-HtrII system in a truncated form, without a full-length counterpart for comparison. Moreover, NpHtrII is distinct among HtrII transducers in lacking the large periplasmic domain retained in homologs from Halobacterium salinarum, Haloarcula marismortui and Haloarcula taiwanensis, leaving the canonical SR-Htr architecture unknown. Here, we report the cryo-EM structure of the Haloarcula taiwanensis SRI-HtrI complex, providing a near native, non-crystallized view of a full-length SR-Htr dimer with the cytoplasmic HAMP1 domain resolved. The structure reveals the intact homodimeric receptor-transducer assembly and visualizes the interface between the helix G (Arg215), SRI E-F loop (Pro154), and HtrI HAMP1. These findings fill the long-standing structural gap for a canonical SR-Htr complex and establish a framework for conserved receptor-transducer coupling across archaeal phototaxis systems.


  • Organizational Affiliation
    • Department of Biochemical Science and Technology, College of Life Science, National Taiwan University, Taipei, Taiwan.

Macromolecule Content 

  • Total Structure Weight: 78.09 kDa 
  • Atom Count: 5,166 
  • Modeled Residue Count: 690 
  • Deposited Residue Count: 740 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Rhodopsin,Chemotaxis protein
A, B
370Haloarcula taiwanensisMutation(s): 0 
Gene Names: BVU17_02570BVU17_02575
UniProt
Find proteins for A0A2H4ZVH1 (Haloarcula taiwanensis)
Explore A0A2H4ZVH1 
Go to UniProtKB:  A0A2H4ZVH1
Find proteins for A0A2H4ZVF9 (Haloarcula taiwanensis)
Explore A0A2H4ZVF9 
Go to UniProtKB:  A0A2H4ZVF9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsA0A2H4ZVH1A0A2H4ZVF9
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2
RECONSTRUCTIONcryoSPARC4.6.0

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-22
    Type: Initial release
  • Version 1.1: 2026-04-29
    Changes: Data collection, Database references