6URO

Cryo-EM structure of human CPSF160-WDR33-CPSF30-PAS RNA-CstF77 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural Insights into the Human Pre-mRNA 3'-End Processing Machinery.

Zhang, Y.Sun, Y.Shi, Y.Walz, T.Tong, L.

(2020) Mol Cell 77: 800

  • DOI: 10.1016/j.molcel.2019.11.005
  • Primary Citation of Related Structures:  
    6URO, 6URG

  • PubMed Abstract: 
  • The mammalian pre-mRNA 3'-end-processing machinery consists of cleavage and polyadenylation specificity factor (CPSF), cleavage stimulation factor (CstF), and other proteins, but the overall architecture of this machinery remains unclear. CPSF contains two functionally distinct modules: a cleavage factor (mCF) and a polyadenylation specificity factor (mPSF) ...

    The mammalian pre-mRNA 3'-end-processing machinery consists of cleavage and polyadenylation specificity factor (CPSF), cleavage stimulation factor (CstF), and other proteins, but the overall architecture of this machinery remains unclear. CPSF contains two functionally distinct modules: a cleavage factor (mCF) and a polyadenylation specificity factor (mPSF). Here, we have produced recombinant human CPSF and CstF and examined these factors by electron microscopy (EM). We find that mPSF is the organizational core of the machinery, while the conformations of mCF and CstF and the position of mCF relative to mPSF are highly variable. We have identified by cryo-EM a segment in CPSF100 that tethers mCF to mPSF, and we have named it the PSF interaction motif (PIM). Mutations in the PIM can abolish CPSF formation, indicating that it is a crucial contact in CPSF. We have also obtained reconstructions of mCF and CstF77 by cryo-EM, assembled around the mPSF core.


    Organizational Affiliation

    Department of Biological Sciences, Columbia University, New York, NY 10027, USA. Electronic address: ltong@columbia.edu.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cleavage and polyadenylation specificity factor subunit 1A1443Homo sapiensMutation(s): 0 
Gene Names: CPSF1CPSF160
UniProt & NIH Common Fund Data Resources
Find proteins for Q10570 (Homo sapiens)
Explore Q10570 
Go to UniProtKB:  Q10570
PHAROS:  Q10570
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
pre-mRNA 3' end processing protein WDR33B587Homo sapiensMutation(s): 0 
Gene Names: WDR33WDC146
UniProt & NIH Common Fund Data Resources
Find proteins for Q9C0J8 (Homo sapiens)
Explore Q9C0J8 
Go to UniProtKB:  Q9C0J8
PHAROS:  Q9C0J8
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Cleavage and polyadenylation specificity factor subunit 4C250Homo sapiensMutation(s): 0 
Gene Names: CPSF4CPSF30NARNEB1
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Find proteins for O95639 (Homo sapiens)
Explore O95639 
Go to UniProtKB:  O95639
PHAROS:  O95639
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Cleavage stimulation factor subunit 3E, F717Homo sapiensMutation(s): 0 
Gene Names: CSTF3
UniProt & NIH Common Fund Data Resources
Find proteins for Q12996 (Homo sapiens)
Explore Q12996 
Go to UniProtKB:  Q12996
PHAROS:  Q12996
Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsLengthOrganismImage
PAS RNAD47Macaca mulatta polyomavirus 1
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
G [auth C], H [auth C], I [auth C]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM118093

Revision History  (Full details and data files)

  • Version 1.0: 2019-11-27
    Type: Initial release
  • Version 1.1: 2019-12-18
    Changes: Database references
  • Version 1.2: 2020-03-04
    Changes: Database references