7CNC

cystal structure of human ERH in complex with DGCR8


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 0.186 
  • R-Value Work: 0.168 
  • R-Value Observed: 0.169 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

ERH facilitates microRNA maturation through the interaction with the N-terminus of DGCR8.

Kwon, S.C.Jang, H.Shen, S.Baek, S.C.Kim, K.Yang, J.Kim, J.Kim, J.S.Wang, S.Shi, Y.Li, F.Kim, V.N.

(2020) Nucleic Acids Res 48: 11097-11112

  • DOI: 10.1093/nar/gkaa827
  • Primary Citation of Related Structures:  
    7CNC

  • PubMed Abstract: 
  • The microprocessor complex cleaves the primary transcript of microRNA (pri-miRNA) to initiate miRNA maturation. Microprocessor is known to consist of RNase III DROSHA and dsRNA-binding DGCR8. Here, we identify Enhancer of Rudimentary Homolog (ERH) as a new component of Microprocessor ...

    The microprocessor complex cleaves the primary transcript of microRNA (pri-miRNA) to initiate miRNA maturation. Microprocessor is known to consist of RNase III DROSHA and dsRNA-binding DGCR8. Here, we identify Enhancer of Rudimentary Homolog (ERH) as a new component of Microprocessor. Through a crystal structure and biochemical experiments, we reveal that ERH uses its hydrophobic groove to bind to a conserved region in the N-terminus of DGCR8, in a 2:2 stoichiometry. Knock-down of ERH or deletion of the DGCR8 N-terminus results in a reduced processing of suboptimal pri-miRNAs in polycistronic miRNA clusters. ERH increases the processing of suboptimal pri-miR-451 in a manner dependent on its neighboring pri-miR-144. Thus, the ERH dimer may mediate 'cluster assistance' in which Microprocessor is loaded onto a poor substrate with help from a high-affinity substrate in the same cluster. Our study reveals a role of ERH in the miRNA biogenesis pathway.


    Organizational Affiliation

    School of Biological Sciences, Seoul National University, Seoul 08826, Korea.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Enhancer of rudimentary homologA112Homo sapiensMutation(s): 0 
Gene Names: ERH
UniProt & NIH Common Fund Data Resources
Find proteins for P84090 (Homo sapiens)
Explore P84090 
Go to UniProtKB:  P84090
PHAROS:  P84090
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP84090
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Microprocessor complex subunit DGCR8B31Homo sapiensMutation(s): 0 
Gene Names: DGCR8C22orf12DGCRK6LP4941
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WYQ5 (Homo sapiens)
Explore Q8WYQ5 
Go to UniProtKB:  Q8WYQ5
PHAROS:  Q8WYQ5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8WYQ5
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 0.186 
  • R-Value Work: 0.168 
  • R-Value Observed: 0.169 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 86.848α = 90
b = 45.072β = 107.44
c = 43.479γ = 90
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
MOLREPphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

  • Deposited Date: 2020-07-30 
  • Released Date: 2020-10-28 
  • Deposition Author(s): Li, F., Shen, S.

Revision History  (Full details and data files)

  • Version 1.0: 2020-10-28
    Type: Initial release
  • Version 1.1: 2020-11-18
    Changes: Database references