6FUF

Crystal structure of the rhodopsin-mini-Go complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.117 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.257 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of rhodopsin in complex with a mini-Gosheds light on the principles of G protein selectivity.

Tsai, C.J.Pamula, F.Nehme, R.Muhle, J.Weinert, T.Flock, T.Nogly, P.Edwards, P.C.Carpenter, B.Gruhl, T.Ma, P.Deupi, X.Standfuss, J.Tate, C.G.Schertler, G.F.X.

(2018) Sci Adv 4: eaat7052-eaat7052

  • DOI: 10.1126/sciadv.aat7052

  • PubMed Abstract: 
  • Selective coupling of G protein (heterotrimeric guanine nucleotide-binding protein)-coupled receptors (GPCRs) to specific Gα-protein subtypes is critical to transform extracellular signals, carried by natural ligands and clinical drugs, into cellular ...

    Selective coupling of G protein (heterotrimeric guanine nucleotide-binding protein)-coupled receptors (GPCRs) to specific Gα-protein subtypes is critical to transform extracellular signals, carried by natural ligands and clinical drugs, into cellular responses. At the center of this transduction event lies the formation of a signaling complex between the receptor and G protein. We report the crystal structure of light-sensitive GPCR rhodopsin bound to an engineered mini-G o protein. The conformation of the receptor is identical to all previous structures of active rhodopsin, including the complex with arrestin. Thus, rhodopsin seems to adopt predominantly one thermodynamically stable active conformation, effectively acting like a "structural switch," allowing for maximum efficiency in the visual system. Furthermore, our analysis of the well-defined GPCR-G protein interface suggests that the precise position of the carboxyl-terminal "hook-like" element of the G protein (its four last residues) relative to the TM7/helix 8 (H8) joint of the receptor is a significant determinant in selective G protein activation.


    Organizational Affiliation

    Department of Biology, ETH Zürich, Wolfgang-Pauli-Strasse 27, 8093 Zürich, Switzerland.,Medical Research Council Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK.,Fitzwilliam College, University of Cambridge, Cambridge, UK.,Condensed Matter Theory Group, PSI, 5232 Villigen PSI, Switzerland.,Laboratory of Biomolecular Research, Paul Scherrer Institute (PSI), 5232 Villigen PSI, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Rhodopsin
A
316Bos taurusMutation(s): 3 
Gene Names: RHO
Find proteins for P02699 (Bos taurus)
Go to Gene View: RHO
Go to UniProtKB:  P02699
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Guanine nucleotide-binding protein G(o) subunit alpha
B
214Homo sapiensMutation(s): 8 
Gene Names: GNAO1
Find proteins for P09471 (Homo sapiens)
Go to Gene View: GNAO1
Go to UniProtKB:  P09471
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RET
Query on RET

Download SDF File 
Download CCD File 
A
RETINAL
C20 H28 O
NCYCYZXNIZJOKI-OVSJKPMPSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.117 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.257 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 151.359α = 90.00
b = 151.359β = 90.00
c = 96.652γ = 120.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
Aimlessdata scaling
XDSdata reduction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland310030_153145
Swiss National Science FoundationSwitzerland310030B_173335
Swiss National Science FoundationSwitzerland310030B_173335
Swiss National Science FoundationSwitzerland31003A_159558
European Research CouncilUnited KingdomEMPSI, 339995

Revision History 

  • Version 1.0: 2018-10-03
    Type: Initial release
  • Version 1.1: 2018-10-10
    Type: Data collection, Database references