8CQB

Cryo-EM structure of the human GBP1 dimer bound to GDP-AlF3

• PDB DOI: https://doi.org/10.2210/pdb8CQB/pdb
• EM Map EMD-16794: EMDB EMDataResource

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-03-04 Released: 2024-03-13 
• Deposition Author(s): Kuhm, T.I., Jakobi, A.J.
• Funding Organization(s): European Research Council (ERC), Netherlands Organisation for Scientific Research (NWO)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of the human GBP1 dimer bound to GDP-AlF3

Kuhm, T.I., de Agrela Pinto, C., Taisne, C., Huber, S., Giannopolou, N., Pardon, E., Steyaert, J., Jakobi, A.J.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: light scattering, native gel electrophoresis, electron microscopy

Macromolecule Content

• Total Structure Weight: 137.15 kDa 
• Atom Count: 7,688 
• Modelled Residue Count: 956 
• Deposited Residue Count: 1,184 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanylate-binding protein 1	A, B	592	Homo sapiens	Mutation(s): 0  Gene Names: GBP1 EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P32455 (Homo sapiens) Explore P32455  Go to UniProtKB:  P32455
PHAROS:  P32455 GTEx:  ENSG00000117228

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP (Subject of Investigation/LOI)	C [auth A], F [auth B]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
AF3 (Subject of Investigation/LOI)	D [auth A], G [auth B]	ALUMINUM FLUORIDE Al F3 KLZUFWVZNOTSEM-UHFFFAOYSA-K
MG (Subject of Investigation/LOI)	E [auth A], H [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	3.3
MODEL REFINEMENT	REFMAC	5

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-03-13 
Deposition Author(s): Kuhm, T.I., Jakobi, A.J.

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Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	852880
Netherlands Organisation for Scientific Research (NWO)	Netherlands	NWO.STU.018-2.007

Revision History  

• Version 1.0: 2024-03-13
  Type: Initial release