8XGM

Cryo-EM structure of human GPR1 bound to chemerin

• PDB DOI: https://doi.org/10.2210/pdb8XGM/pdb
• EM Map EMD-38328: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Vicugna pacos, Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 
• Membrane Protein: Yes  PDBTM


• Deposited: 2023-12-15 Released: 2024-08-21 
• Deposition Author(s): Liu, A.J., Liu, Y.Z., Ye, R.D.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.29 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of human GPR1 bound to chemerin

Liu, A.J., Liu, Y.Z.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A1B1C1D1E1F1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 162.36 kDa 
• Atom Count: 10,319 
• Modelled Residue Count: 1,302 
• Deposited Residue Count: 1,439 
• Unique protein chains: 6

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
scFV16	A [auth S]	247	Vicugna pacos	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
G-protein coupled receptor 1	B [auth A]	306	Homo sapiens	Mutation(s): 0  Gene Names: GPR1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P46091 (Homo sapiens) Explore P46091  Go to UniProtKB:  P46091
PHAROS:  P46091 GTEx:  ENSG00000183671

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	C [auth B]	340	Homo sapiens	Mutation(s): 0  Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens) Explore P62873  Go to UniProtKB:  P62873
PHAROS:  P62873 GTEx:  ENSG00000078369

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1	D [auth C]	354	Homo sapiens	Mutation(s): 2  Gene Names: GNAI1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens) Explore P63096  Go to UniProtKB:  P63096
PHAROS:  P63096 GTEx:  ENSG00000127955

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein subunit gamma	E [auth G]	55	Homo sapiens	Mutation(s): 0  Gene Names: GNG2 Membrane Entity: Yes
UniProt
Find proteins for A0A6P5CFI6 (Bos indicus) Explore A0A6P5CFI6  Go to UniProtKB:  A0A6P5CFI6

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Retinoic acid receptor responder protein 2	F [auth D]	137	Homo sapiens	Mutation(s): 0  Gene Names: RARRES2 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q99969 (Homo sapiens) Explore Q99969  Go to UniProtKB:  Q99969
PHAROS:  Q99969 GTEx:  ENSG00000106538

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CLR	G [auth A]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.29 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-21 
Deposition Author(s): Liu, A.J., Liu, Y.Z., Ye, R.D.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-08-21
  Type: Initial release