7Y48

Cryo-EM Structure of biliverdin-bound mitochondrial ABC transporter ABCB10 from Biortus


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.85 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Cryo-EM structures of mitochondrial ABC transporter ABCB10 in apo and biliverdin-bound form.

Cao, S.Yang, Y.He, L.Hang, Y.Yan, X.Shi, H.Wu, J.Ouyang, Z.

(2023) Nat Commun 14: 2030-2030

  • DOI: https://doi.org/10.1038/s41467-023-37851-9
  • Primary Citation of Related Structures:  
    7Y48, 7Y49

  • PubMed Abstract: 

    ABCB10, a member of ABC transporter superfamily that locates in the inner membrane of mitochondria, plays crucial roles in hemoglobin synthesis, antioxidative stress and stabilization of the iron transporter mitoferrin-1. Recently, it was found that ABCB10 is a mitochondrial biliverdin exporter. However, the molecular mechanism of biliverdin export by ABCB10 remains elusive. Here we report the cryo-EM structures of ABCB10 in apo (ABCB10-apo) and biliverdin-bound form (ABCB10-BV) at 3.67 Å and 2.85 Å resolution, respectively. ABCB10-apo adopts a wide-open conformation and may thus represent the apo form structure. ABCB10-BV forms a closed conformation and biliverdin situates in a hydrophobic pocket in one protomer and bridges the interaction through hydrogen bonds with the opposing one. We also identify cholesterols sandwiched by BVs and discuss the export dynamics based on these structural and biochemical observations.


  • Organizational Affiliation

    Wuxi Biortus Biosciences Co. Ltd., 6 Dongsheng Western Road, 214437, Jiangyin, Jiangsu, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ATP-binding cassette sub-family B member 10, mitochondrialA [auth B]613Homo sapiensMutation(s): 1 
Gene Names: ABCB10
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NRK6 (Homo sapiens)
Explore Q9NRK6 
Go to UniProtKB:  Q9NRK6
PHAROS:  Q9NRK6
GTEx:  ENSG00000135776 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9NRK6
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.85 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-24
    Type: Initial release
  • Version 1.1: 2023-09-27
    Changes: Data collection, Derived calculations, Refinement description, Structure summary
  • Version 1.2: 2024-05-08
    Changes: Database references, Structure summary