6ERQ

Structure of the human mitochondrial transcription initiation complex at the HSP promoter

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.50 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.291 
  • R-Value Observed: 0.293 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structural Basis of Mitochondrial Transcription Initiation.

Hillen, H.S., Morozov, Y.I., Sarfallah, A., Temiakov, D., Cramer, P.

(2017) Cell 171: 1072-1081.e10

  • DOI: https://doi.org/10.1016/j.cell.2017.10.036
  • Primary Citation of Related Structures:  
    6ERO, 6ERP, 6ERQ

  • PubMed Abstract: 

    • Transcription in human mitochondria is driven by a single-subunit, factor-dependent RNA polymerase (mtRNAP). Despite its critical role in both expression and replication of the mitochondrial genome, transcription initiation by mtRNAP remains poorly understood ...

    Transcription in human mitochondria is driven by a single-subunit, factor-dependent RNA polymerase (mtRNAP). Despite its critical role in both expression and replication of the mitochondrial genome, transcription initiation by mtRNAP remains poorly understood. Here, we report crystal structures of human mitochondrial transcription initiation complexes assembled on both light and heavy strand promoters. The structures reveal how transcription factors TFAM and TFB2M assist mtRNAP to achieve promoter-dependent initiation. TFAM tethers the N-terminal region of mtRNAP to recruit the polymerase to the promoter whereas TFB2M induces structural changes in mtRNAP to enable promoter opening and trapping of the DNA non-template strand. Structural comparisons demonstrate that the initiation mechanism in mitochondria is distinct from that in the well-studied nuclear, bacterial, or bacteriophage transcription systems but that similarities are found on the topological and conceptual level. These results provide a framework for studying the regulation of gene expression and DNA replication in mitochondria.

    Organizational Affiliation: 

    Department of Molecular Biology, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany. Electronic address: patrick.cramer@mpibpc.mpg.de.



Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription factor A, mitochondrialA [auth C],
D [auth G]		205Homo sapiensMutation(s): 0 
Gene Names: TFAM, TCF6, TCF6L2
UniProt & NIH Common Fund Data Resources
Find proteins for Q00059 (Homo sapiens)
Explore Q00059 
Go to UniProtKB:  Q00059
PHAROS:  Q00059
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ00059
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase, mitochondrialG [auth A],
H [auth B]		1,128Homo sapiensMutation(s): 0 
Gene Names: POLRMT
EC: 2.7.7.6
UniProt & NIH Common Fund Data Resources
Find proteins for O00411 (Homo sapiens)
Explore O00411 
Go to UniProtKB:  O00411
PHAROS:  O00411
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO00411
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Dimethyladenosine transferase 2, mitochondrialI [auth F],
J		377Homo sapiensMutation(s): 0 
Gene Names: TFB2M, NS5ATP5
EC: 2.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H5Q4 (Homo sapiens)
Explore Q9H5Q4 
Go to UniProtKB:  Q9H5Q4
PHAROS:  Q9H5Q4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H5Q4
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsLengthOrganismImage
Non-Template DNAB [auth D],
E [auth H]		50Homo sapiens
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChainsLengthOrganismImage
Template DNAC [auth E],
F [auth I]		50Homo sapiens
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.50 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.291 
  • R-Value Observed: 0.293 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 103.62α = 90
b = 197.73β = 99.39
c = 134.34γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHENIXphasing
Cootmodel building

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB860
German Research FoundationGermanySPP1935
European Research CouncilGermany693023
Volkswagen FoundationGermany--
National Institutes of HealthUnited StatesRO1 GM104231
Boehringer Ingelheim FondsGermanyPhD Student Fellowship

Revision History  (Full details and data files)

  • Version 1.0: 2017-11-15
    Type: Initial release
  • Version 1.1: 2017-11-29
    Changes: Database references
  • Version 1.2: 2018-01-31
    Changes: Author supporting evidence