5OF4

The cryo-EM structure of human TFIIH


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The cryo-electron microscopy structure of human transcription factor IIH.

Greber, B.J.Nguyen, T.H.D.Fang, J.Afonine, P.V.Adams, P.D.Nogales, E.

(2017) Nature 549: 414-417

  • DOI: 10.1038/nature23903
  • Also Cited By: 6O9M

  • PubMed Abstract: 
  • Human transcription factor IIH (TFIIH) is part of the general transcriptional machinery required by RNA polymerase II for the initiation of eukaryotic gene transcription. Composed of ten subunits that add up to a molecular mass of about 500 kDa, TFII ...

    Human transcription factor IIH (TFIIH) is part of the general transcriptional machinery required by RNA polymerase II for the initiation of eukaryotic gene transcription. Composed of ten subunits that add up to a molecular mass of about 500 kDa, TFIIH is also essential for nucleotide excision repair. The seven-subunit TFIIH core complex formed by XPB, XPD, p62, p52, p44, p34, and p8 is competent for DNA repair, while the CDK-activating kinase subcomplex, which includes the kinase activity of CDK7 as well as the cyclin H and MAT1 subunits, is additionally required for transcription initiation. Mutations in the TFIIH subunits XPB, XPD, and p8 lead to severe premature ageing and cancer propensity in the genetic diseases xeroderma pigmentosum, Cockayne syndrome, and trichothiodystrophy, highlighting the importance of TFIIH for cellular physiology. Here we present the cryo-electron microscopy structure of human TFIIH at 4.4 Å resolution. The structure reveals the molecular architecture of the TFIIH core complex, the detailed structures of its constituent XPB and XPD ATPases, and how the core and kinase subcomplexes of TFIIH are connected. Additionally, our structure provides insight into the conformational dynamics of TFIIH and the regulation of its activity.


    Organizational Affiliation

    California Institute for Quantitative Biology (QB3), University of California, Berkeley, California 94720, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TFIIH basal transcription factor complex helicase XPB subunit,XPB,TFIIH basal transcription factor complex helicase XPB subunit
A
553Homo sapiensMutation(s): 0 
Gene Names: ERCC3 (XPB, XPBC)
EC: 3.6.4.12
Find proteins for P19447 (Homo sapiens)
Go to Gene View: ERCC3
Go to UniProtKB:  P19447
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TFIIH basal transcription factor complex helicase XPD subunit
B
760Homo sapiensMutation(s): 0 
Gene Names: ERCC2 (XPD, XPDC)
EC: 3.6.4.12
Find proteins for P18074 (Homo sapiens)
Go to Gene View: ERCC2
Go to UniProtKB:  P18074
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
General transcription factor IIH subunit 4,p52,General transcription factor IIH subunit 4
D
85Homo sapiensMutation(s): 0 
Gene Names: GTF2H4
Find proteins for Q92759 (Homo sapiens)
Go to Gene View: GTF2H4
Go to UniProtKB:  Q92759
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
General transcription factor IIH subunit 2
E
395Homo sapiensMutation(s): 0 
Gene Names: GTF2H2 (BTF2P44)
Find proteins for Q13888 (Homo sapiens)
Go to Gene View: GTF2H2
Go to UniProtKB:  Q13888
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
General transcription factor IIH subunit 3
F
308Homo sapiensMutation(s): 0 
Gene Names: GTF2H3
Find proteins for Q13889 (Homo sapiens)
Go to Gene View: GTF2H3
Go to UniProtKB:  Q13889
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
General transcription factor IIH subunit 5
G
71Homo sapiensMutation(s): 0 
Gene Names: GTF2H5 (C6orf175, TTDA)
Find proteins for Q6ZYL4 (Homo sapiens)
Go to Gene View: GTF2H5
Go to UniProtKB:  Q6ZYL4
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
MAT1
H
124N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements.
Z
270N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (p52 region)
Y
232N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (XPB NTE region)
X
78N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SF4
Query on SF4

Download SDF File 
Download CCD File 
B
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
A, D, H, X, Y, Z
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
NIH/NIGMSUnited StatesR01-GM63072
National Institutes of HealthUnited StatesP01-GM063210

Revision History 

  • Version 1.0: 2017-09-13
    Type: Initial release
  • Version 1.1: 2017-09-27
    Type: Database references
  • Version 1.2: 2017-10-04
    Type: Database references
  • Version 1.3: 2018-10-17
    Type: Data collection, Refinement description