8T9A

CryoEM structure of human DDB1-DCAF12 in complex with MAGEA3

• PDB DOI: https://doi.org/10.2210/pdb8T9A/pdb
• EM Map EMD-41105: EMDB EMDataResource

• Classification: LIGASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2023-06-23 Released: 2024-04-10 
• Deposition Author(s): Duda, D., Righetto, G., Li, Y., Loppnau, P., Seitova, A., Santhakumar, V., Halabelian, L., Yin, Y.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.17 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

CryoEM structure of human DDB1-DCAF12 in complex with MAGEA3

Duda, D., Righetto, G., Li, Y., Loppnau, P., Seitova, A., Santhakumar, V., Halabelian, L., Yin, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 203.89 kDa 
• Atom Count: 11,785 
• Modelled Residue Count: 1,498 
• Deposited Residue Count: 1,823 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA damage-binding protein 1	A	1,140	Homo sapiens	Mutation(s): 0  Gene Names: DDB1, XAP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q16531 (Homo sapiens) Explore Q16531  Go to UniProtKB:  Q16531
PHAROS:  Q16531 GTEx:  ENSG00000167986

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DDB1- and CUL4-associated factor 12	B	471	Homo sapiens	Mutation(s): 1  Gene Names: DCAF12, KIAA1892, TCC52, WDR40A
UniProt & NIH Common Fund Data Resources
Find proteins for Q5T6F0 (Homo sapiens) Explore Q5T6F0  Go to UniProtKB:  Q5T6F0
PHAROS:  Q5T6F0 GTEx:  ENSG00000198876

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Melanoma-associated antigen 3	C	212	Homo sapiens	Mutation(s): 0  Gene Names: MAGEA3, MAGE3
UniProt & NIH Common Fund Data Resources
Find proteins for P43357 (Homo sapiens) Explore P43357  Go to UniProtKB:  P43357
PHAROS:  P43357 GTEx:  ENSG00000221867

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.17 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-04-10 
Deposition Author(s): Duda, D., Righetto, G., Li, Y., Loppnau, P., Seitova, A., Santhakumar, V., Halabelian, L., Yin, Y.

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Funding Organization	Location	Grant Number
Other government		--

Revision History  

• Version 1.0: 2024-04-10
  Type: Initial release