6WWZ

Cryo-EM structure of the human chemokine receptor CCR6 in complex with CCL20 and a Go protein


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.34 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis for chemokine receptor CCR6 activation by the endogenous protein ligand CCL20.

Wasilko, D.J.Johnson, Z.L.Ammirati, M.Che, Y.Griffor, M.C.Han, S.Wu, H.

(2020) Nat Commun 11: 3031-3031

  • DOI: 10.1038/s41467-020-16820-6
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Chemokines are important protein-signaling molecules that regulate various immune responses by activating chemokine receptors which belong to the G protein-coupled receptor (GPCR) superfamily. Despite the substantial progression of our structural und ...

    Chemokines are important protein-signaling molecules that regulate various immune responses by activating chemokine receptors which belong to the G protein-coupled receptor (GPCR) superfamily. Despite the substantial progression of our structural understanding of GPCR activation by small molecule and peptide agonists, the molecular mechanism of GPCR activation by protein agonists remains unclear. Here, we present a 3.3-Å cryo-electron microscopy structure of the human chemokine receptor CCR6 bound to its endogenous ligand CCL20 and an engineered Go. CCL20 binds in a shallow extracellular pocket, making limited contact with the core 7-transmembrane (TM) bundle. The structure suggests that this mode of binding induces allosterically a rearrangement of a noncanonical toggle switch and the opening of the intracellular crevice for G protein coupling. Our results demonstrate that GPCR activation by a protein agonist does not always require substantial interactions between ligand and the 7TM core region.


    Organizational Affiliation

    Discovery Sciences, Medicine Design, Pfizer Worldwide Research and Development, Groton, CT, 06340, USA. huixian.wu@pfizer.com.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
B
351Rattus norvegicusMutation(s): 0 
Gene Names: Gnb1
Find proteins for P54311 (Rattus norvegicus)
Go to UniProtKB:  P54311
Protein Feature View
  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
C-C motif chemokine 20
C
70Homo sapiensMutation(s): 0 
Gene Names: CCL20LARCMIP3ASCYA20
Membrane protein
Mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
G Protein-Coupled Receptors (GPCRs)
Protein: 
CCR6 chemokine receptor with bound CCL20 and a Go protein
Find proteins for P78556 (Homo sapiens)
Go to UniProtKB:  P78556
NIH Common Fund Data Resources
PHAROS  P78556
Protein Feature View
  • Reference Sequence

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
Y
68Rattus norvegicusMutation(s): 0 
Protein Feature View
  • Reference Sequence

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Guanine nucleotide-binding protein G(o) subunit alpha,Guanine nucleotide-binding protein G(o) subunit alpha
A
250Homo sapiensMutation(s): 0 
Gene Names: GNAO1
Membrane protein
Mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
G Protein-Coupled Receptors (GPCRs)
Protein: 
CCR6 chemokine receptor with bound CCL20 and a Go protein
Find proteins for P09471 (Homo sapiens)
Go to UniProtKB:  P09471
NIH Common Fund Data Resources
PHAROS  P09471
Protein Feature View
  • Reference Sequence

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
scFv16
S
287Mus musculusMutation(s): 0 
Protein Feature View
  • Reference Sequence

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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
C-C chemokine receptor type 6,C-C chemokine receptor type 6
R
529Homo sapiensMutation(s): 0 
Gene Names: CCR6
Membrane protein
Mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
G Protein-Coupled Receptors (GPCRs)
Protein: 
CCR6 chemokine receptor with bound CCL20 and a Go protein
Find proteins for P51684 (Homo sapiens)
Go to UniProtKB:  P51684
NIH Common Fund Data Resources
PHAROS  P51684
Protein Feature View
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.34 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2020-06-24
    Type: Initial release
  • Version 1.1: 2020-07-01
    Changes: Database references