6L0O

WH domain of human MCM8

• PDB DOI: https://doi.org/10.2210/pdb6L0O/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-09-26 Released: 2020-04-29 
• Deposition Author(s): Liu, Y., Li, J., Liu, L., Zeng, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.21 Å
• R-Value Free: 0.146 
• R-Value Work: 0.120 
• R-Value Observed: 0.122 

Literature

Crystal structure of the winged-helix domain of MCM8.

Zeng, H., Li, J., Xu, H., Li, H., Liu, Y.

(2020) Biochem Biophys Res Commun 526: 993-998

• PubMed: 32295713 
• DOI: https://doi.org/10.1016/j.bbrc.2020.03.150
• Primary Citation of Related Structures:  
  6L0O


• PubMed Abstract: 
  

  Minichromosome maintenance 8 (MCM8) is a recently identified member of the minichromosome maintenance family, which possesses helicase and ATPase activity. It interacts with MCM9 and participates in homologous recombination repair. The structure of MCM8 is unclear now. Here, we report the crystal structure of the winged-helix domain of human MCM8 (MCM8-WHD) at 1.21 Å resolution. MCM8-WHD adopts a conserved winged-helix architecture. Structure analysis and biochemical study results showed the DNA binding ability and crucial residues of MCM8-WHD. Our results are helpful to understand the function of MCM8.

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Organizational Affiliation: 

School of Medicine, Sun Yat-Sen University, Guangzhou, 510275, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: gel filtration, homology

Macromolecule Content

• Total Structure Weight: 9.74 kDa 
• Atom Count: 716 
• Modelled Residue Count: 71 
• Deposited Residue Count: 81 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA helicase MCM8	A	81	Homo sapiens	Mutation(s): 0  Gene Names: MCM8, C20orf154 EC: 3.6.4.12
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UJA3 (Homo sapiens) Explore Q9UJA3  Go to UniProtKB:  Q9UJA3
PHAROS:  Q9UJA3 GTEx:  ENSG00000125885

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.21 Å
• R-Value Free: 0.146 
• R-Value Work: 0.120 
• R-Value Observed: 0.122 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.062	α = 90
b = 52.062	β = 90
c = 50.468	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
SCALEPACK	data scaling
Sir2014	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-04-29 
Deposition Author(s): Liu, Y., Li, J., Liu, L., Zeng, H.

Revision History  

• Version 1.0: 2020-04-29
  Type: Initial release
  
• Version 1.1: 2020-06-03
  Changes: Database references
• Version 1.2: 2024-03-27
  Changes: Data collection, Database references