8FVJ

Dimeric form of HIV-1 Vif in complex with human CBF-beta, ELOB, ELOC, and CUL5

• PDB DOI: https://doi.org/10.2210/pdb8FVJ/pdb
• EM Map EMD-29489: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Homo sapiens, Human immunodeficiency virus 1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-01-19 Released: 2023-09-06 
• Deposition Author(s): Ito, F., Alvarez-Cabrera, A.L., Zhou, Z.H., Chen, X.S.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.54 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis of HIV-1 Vif-mediated E3 ligase targeting of host APOBEC3H

Ito, F., Alvarez-Cabrera, A.L., Kim, K., Zhou, Z.H., Chen, X.S.

(2023) Nat Commun 14: 5241

• DOI: https://doi.org/10.1038/s41467-023-40955-x

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 10-mer - A2B2C2D2E2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 197.63 kDa 
• Atom Count: 12,562 
• Modelled Residue Count: 1,536 
• Deposited Residue Count: 1,694 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Core-binding factor subunit beta	A [auth 0], F [auth 5]	157	Homo sapiens	Mutation(s): 0  Gene Names: CBFB
UniProt & NIH Common Fund Data Resources
Find proteins for Q13951 (Homo sapiens) Explore Q13951  Go to UniProtKB:  Q13951
PHAROS:  Q13951 GTEx:  ENSG00000067955

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Virion infectivity factor	B [auth 1], G [auth 6]	178	Human immunodeficiency virus 1	Mutation(s): 0  Gene Names: vif
UniProt
Find proteins for P12504 (Human immunodeficiency virus type 1 group M subtype B (isolate NY5)) Explore P12504  Go to UniProtKB:  P12504

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Elongin-B	C [auth 3], H [auth 8]	102	Homo sapiens	Mutation(s): 0  Gene Names: ELOB, TCEB2
UniProt & NIH Common Fund Data Resources
Find proteins for Q15370 (Homo sapiens) Explore Q15370  Go to UniProtKB:  Q15370
PHAROS:  Q15370 GTEx:  ENSG00000103363

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Elongin-C	D [auth 4], I [auth 9]	96	Homo sapiens	Mutation(s): 0  Gene Names: ELOC, TCEB1
UniProt & NIH Common Fund Data Resources
Find proteins for Q15369 (Homo sapiens) Explore Q15369  Go to UniProtKB:  Q15369
PHAROS:  Q15369 GTEx:  ENSG00000154582

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Cullin-5	E [auth 2], J [auth 7]	314	Homo sapiens	Mutation(s): 0  Gene Names: CUL5, VACM1
UniProt & NIH Common Fund Data Resources
Find proteins for Q93034 (Homo sapiens) Explore Q93034  Go to UniProtKB:  Q93034
PHAROS:  Q93034 GTEx:  ENSG00000166266

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	K [auth 1], L [auth 6]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.54 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: 2023-09-06 
Deposition Author(s): Ito, F., Alvarez-Cabrera, A.L., Zhou, Z.H., Chen, X.S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01AI150524

Revision History  

• Version 1.0: 2023-09-06
  Type: Initial release