7B03 | pdb_00007b03

Cryo-EM structure of the green-light absorbing proteorhodopsin

• PDB DOI: https://doi.org/10.2210/pdb7B03/pdb
• EM Map EMD-11955: EMDB EMDataResource

• Classification: PROTON TRANSPORT
• Organism(s): uncultured Gammaproteobacteria bacterium
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2020-11-18 Released: 2021-06-16 
• Deposition Author(s): Hirschi, S., Kalbermatter, D., Fotiadis, D.
• Funding Organization(s): Swiss National Science Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.93 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure and dynamics of the green-light absorbing proteorhodopsin

Hirschi, S., Kalbermatter, D., Ucurum, Z., Lemmin, T., Fotiadis, D.

(2021) Nature Communications 12: 4107

• DOI: https://doi.org/10.1038/s41467-021-24429-6

Biological Assembly 1  

Global Symmetry: Cyclic - C5  (Explore in 3D)
Global Stoichiometry: Homo 5-mer - A5 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 129.48 kDa 
• Atom Count: 8,670 
• Modeled Residue Count: 1,085 
• Deposited Residue Count: 1,165 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proteorhodopsin	A, B, C, D, E	233	uncultured Gammaproteobacteria bacterium	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for Q6J4G7 (Unknown prokaryotic organism) Explore Q6J4G7  Go to UniProtKB:  Q6J4G7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RET (Subject of Investigation/LOI)	F [auth A], G [auth B], H [auth C], I [auth D], J [auth E]	RETINAL C20 H28 O NCYCYZXNIZJOKI-OVSJKPMPSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.93 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-06-16 
Deposition Author(s): Hirschi, S., Kalbermatter, D., Fotiadis, D.

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Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	--

Revision History  

• Version 1.0: 2021-06-16
  Type: Initial release
  
• Version 1.1: 2021-07-14
  Changes: Database references
• Version 1.2: 2024-10-16
  Changes: Data collection, Database references, Structure summary