5ONA

Drosophila Bag-of-marbles CBM peptide bound to human CAF40-CNOT1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.210 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

DrosophilaBag-of-marbles directly interacts with the CAF40 subunit of the CCR4-NOT complex to elicit repression of mRNA targets.

Sgromo, A.Raisch, T.Backhaus, C.Keskeny, C.Alva, V.Weichenrieder, O.Izaurralde, E.

(2018) RNA 24: 381-395

  • DOI: 10.1261/rna.064584.117
  • Primary Citation of Related Structures:  
    5ONA, 5ONB

  • PubMed Abstract: 
  • Drosophila melanogaster Bag-of-marbles (Bam) promotes germline stem cell (GSC) differentiation by repressing the expression of mRNAs encoding stem cell maintenance factors. Bam interacts with Benign gonial cell neoplasm (Bgcn) and the CCR4 deadenylase, a catalytic subunit of the CCR4-NOT complex ...

    Drosophila melanogaster Bag-of-marbles (Bam) promotes germline stem cell (GSC) differentiation by repressing the expression of mRNAs encoding stem cell maintenance factors. Bam interacts with Benign gonial cell neoplasm (Bgcn) and the CCR4 deadenylase, a catalytic subunit of the CCR4-NOT complex. Bam has been proposed to bind CCR4 and displace it from the CCR4-NOT complex. Here, we investigated the interaction of Bam with the CCR4-NOT complex by using purified recombinant proteins. Unexpectedly, we found that Bam does not interact with CCR4 directly but instead binds to the CAF40 subunit of the complex in a manner mediated by a conserved N-terminal CAF40-binding motif (CBM). The crystal structure of the Bam CBM bound to CAF40 reveals that the CBM peptide adopts an α-helical conformation after binding to the concave surface of the crescent-shaped CAF40 protein. We further show that Bam-mediated mRNA decay and translational repression depend entirely on Bam's interaction with CAF40. Thus, Bam regulates the expression of its mRNA targets by recruiting the CCR4-NOT complex through interaction with CAF40.


    Organizational Affiliation

    Department of Biochemistry, Max Planck Institute for Developmental Biology, Tübingen, D-72076, Germany.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CCR4-NOT transcription complex subunit 1A, D244Homo sapiensMutation(s): 0 
Gene Names: CNOT1CDC39KIAA1007NOT1AD-005
Find proteins for A5YKK6 (Homo sapiens)
Explore A5YKK6 
Go to UniProtKB:  A5YKK6
NIH Common Fund Data Resources
PHAROS:  A5YKK6
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
CCR4-NOT transcription complex subunit 9B, E273Homo sapiensMutation(s): 0 
Gene Names: CNOT9RCD1RQCD1
Find proteins for Q92600 (Homo sapiens)
Explore Q92600 
Go to UniProtKB:  Q92600
NIH Common Fund Data Resources
PHAROS:  Q92600
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Protein bag-of-marblesC, F24Drosophila melanogasterMutation(s): 0 
Gene Names: bamCG10422
Find proteins for P22745 (Drosophila melanogaster)
Explore P22745 
Go to UniProtKB:  P22745
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.210 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 106.6α = 90
b = 106.6β = 90
c = 263.43γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-12-27
    Type: Initial release
  • Version 1.1: 2018-03-28
    Changes: Data collection, Database references