6AF0

Structure of Ctr9, Paf1 and Cdc73 ternary complex from Myceliophthora thermophila


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.88 Å
  • R-Value Free: 0.309 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.248 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Transcriptional elongation factor Paf1 core complex adopts a spirally wrapped solenoidal topology.

Deng, P.Zhou, Y.Jiang, J.Li, H.Tian, W.Cao, Y.Qin, Y.Kim, J.Roeder, R.G.Patel, D.J.Wang, Z.

(2018) Proc Natl Acad Sci U S A 115: 9998-10003

  • DOI: 10.1073/pnas.1812256115
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The polymerase-associated factor 1 (Paf1) complex is a general transcription elongation factor of RNA polymerase II, which is composed of five core subunits, Paf1, Ctr9, Cdc73, Leo1, and Rtf1, and functions as a diverse platform that broadly affects ...

    The polymerase-associated factor 1 (Paf1) complex is a general transcription elongation factor of RNA polymerase II, which is composed of five core subunits, Paf1, Ctr9, Cdc73, Leo1, and Rtf1, and functions as a diverse platform that broadly affects gene expression genome-wide. In this study, we solved the 2.9-Å crystal structure of the core region composed of the Ctr9-Paf1-Cdc73 ternary complex from a thermophilic fungi, which provides a structural perspective of the molecular details of the organization and interactions involving the Paf1 subunits in the core complex. We find that Ctr9 is composed of 21 tetratricopeptide repeat (TPR) motifs that wrap three circular turns in a right-handed superhelical manner around the N-terminal region of an elongated single-polypeptide-chain scaffold of Paf1. The Cdc73 fragment is positioned within the surface groove of Ctr9, where it contacts mainly with Ctr9 and minimally with Paf1. We also identified that the Paf1 complex preferentially binds single-strand-containing DNAs. Our work provides structural insights into the overall architecture of the Paf1 complex and paves the road forward for understanding the molecular mechanisms of the Paf1 complex in transcriptional regulation.


    Organizational Affiliation

    Key Laboratory of Cell Proliferation and Regulation Biology of Ministry of Education, College of Life Sciences, Beijing Normal University, 100875 Beijing, China; pateld@mskcc.org wangz@bnu.edu.cn.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ctr9 proteinA939Thermothelomyces thermophilus ATCC 42464Mutation(s): 0 
Gene Names: MYCTH_2305158
Find proteins for G2QC65 (Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799))
Explore G2QC65 
Go to UniProtKB:  G2QC65
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Paf1 proteinP121Thermothelomyces thermophilus ATCC 42464Mutation(s): 0 
Gene Names: MYCTH_2303763
Find proteins for G2QDK9 (Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799))
Explore G2QDK9 
Go to UniProtKB:  G2QDK9
Protein Feature View
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  • Reference Sequence

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Cdc73 proteinC74Thermothelomyces thermophilus ATCC 42464Mutation(s): 0 
Gene Names: MYCTH_2298931
Find proteins for G2Q3X1 (Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799))
Explore G2Q3X1 
Go to UniProtKB:  G2Q3X1
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.88 Å
  • R-Value Free: 0.309 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.248 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 99.867α = 90
b = 237.789β = 90
c = 62.737γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31570729
National Natural Science Foundation of ChinaChina31370719

Revision History 

  • Version 1.0: 2018-09-19
    Type: Initial release
  • Version 1.1: 2018-10-17
    Changes: Data collection, Database references