7EGA

TFIID-based intermediate PIC on PUMA promoter


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into preinitiation complex assembly on core promoters.

Chen, X.Qi, Y.Wu, Z.Wang, X.Li, J.Zhao, D.Hou, H.Li, Y.Yu, Z.Liu, W.Wang, M.Ren, Y.Li, Z.Yang, H.Xu, Y.

(2021) Science 372

  • DOI: 10.1126/science.aba8490
  • Primary Citation of Related Structures:  
    7EDX, 7EG7, 7EG8, 7EG9, 7EGA, 7EGB, 7EGC, 7EGD, 7EGE, 7EGF, 7EGG, 7EGH, 7EGI, 7EGJ

  • PubMed Abstract: 
  • Transcription factor IID (TFIID) recognizes core promoters and supports preinitiation complex (PIC) assembly for RNA polymerase II (Pol II)-mediated eukaryotic transcription. We determined the structures of human TFIID-based PIC in three stepwise assembly states and revealed two-track PIC assembly: stepwise promoter deposition to Pol II and extensive modular reorganization on track I (on TATA-TFIID-binding element promoters) versus direct promoter deposition on track II (on TATA-only and TATA-less promoters) ...

    Transcription factor IID (TFIID) recognizes core promoters and supports preinitiation complex (PIC) assembly for RNA polymerase II (Pol II)-mediated eukaryotic transcription. We determined the structures of human TFIID-based PIC in three stepwise assembly states and revealed two-track PIC assembly: stepwise promoter deposition to Pol II and extensive modular reorganization on track I (on TATA-TFIID-binding element promoters) versus direct promoter deposition on track II (on TATA-only and TATA-less promoters). The two tracks converge at an ~50-subunit holo PIC in identical conformation, whereby TFIID stabilizes PIC organization and supports loading of cyclin-dependent kinase (CDK)-activating kinase (CAK) onto Pol II and CAK-mediated phosphorylation of the Pol II carboxyl-terminal domain. Unexpectedly, TBP of TFIID similarly bends TATA box and TATA-less promoters in PIC. Our study provides structural visualization of stepwise PIC assembly on highly diversified promoters.


    Organizational Affiliation

    Human Phenome Institute, Collaborative Innovation Center of Genetics and Development, School of Life Sciences, Fudan University, Shanghai 200433, China.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 1A1,872Homo sapiensMutation(s): 0 
Gene Names: TAF1BA2RCCG1CCGSTAF2A
EC: 2.3.1.48 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 2B1,199Homo sapiensMutation(s): 0 
Gene Names: TAF2CIF150TAF2B
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 4C [auth D],
T [auth d]
1,085Homo sapiensMutation(s): 0 
Gene Names: TAF4TAF2CTAF2C1TAF4ATAFII130TAFII135
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 5D [auth E],
U [auth e]
800Homo sapiensMutation(s): 0 
Gene Names: TAF5TAF2D
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 6E [auth F],
V [auth f]
677Homo sapiensMutation(s): 0 
Gene Names: TAF6TAF2ETAFII70
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 7F [auth G]349Homo sapiensMutation(s): 0 
Gene Names: TAF7TAF2FTAFII55
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 8G [auth H]310Homo sapiensMutation(s): 0 
Gene Names: TAF8TAFII43TBN
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 9H [auth I],
W [auth i]
264Homo sapiensMutation(s): 0 
Gene Names: TAF9TAF2GTAFII31
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 10I [auth J],
X [auth j]
218Homo sapiensMutation(s): 0 
Gene Names: TAF10TAF2ATAF2HTAFII30
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 12J [auth L],
Z [auth l]
161Homo sapiensMutation(s): 0 
Gene Names: TAF12TAF15TAF2JTAFII20
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor IIA subunit 2K [auth O]109Homo sapiensMutation(s): 0 
Gene Names: GTF2A2TF2A2
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
TATA-box-binding proteinL [auth P]339Homo sapiensMutation(s): 0 
Gene Names: TBPGTF2D1TF2DTFIID
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor IIA subunit 1M [auth Q]376Homo sapiensMutation(s): 0 
Gene Names: GTF2A1TF2A1
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor IIBN [auth R]316Homo sapiensMutation(s): 0 
Gene Names: GTF2BTF2BTFIIB
EC: 2.3.1.48
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
General transcription factor IIF subunit 1O [auth S]517Homo sapiensMutation(s): 0 
Gene Names: GTF2F1RAP74
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
General transcription factor IIF subunit 2P [auth T]249Homo sapiensMutation(s): 0 
Gene Names: GTF2F2RAP30
EC: 3.6.4.12
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Entity ID: 17
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General transcription factor IIE subunit 1Q [auth U]439Homo sapiensMutation(s): 0 
Gene Names: GTF2E1TF2E1
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor IIE subunit betaR [auth V]291Homo sapiensMutation(s): 0 
Gene Names: GTF2E2TF2E2
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 3S [auth c]929Homo sapiensMutation(s): 0 
Gene Names: TAF3
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 11Y [auth k]211Homo sapiensMutation(s): 0 
Gene Names: TAF11TAF2IPRO2134
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 13AA [auth m]124Homo sapiensMutation(s): 0 
Gene Names: TAF13TAF2KTAFII18
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunitBA [auth o]1,487Sus scrofaMutation(s): 0 
EC: 2.7.7.6
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Entity ID: 23
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DNA-directed RNA polymerase subunit betaCA [auth p]1,174Sus scrofaMutation(s): 0 
Gene Names: POLR2B
EC: 2.7.7.6
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Entity ID: 24
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DNA-directed RNA polymerase II subunit RPB3DA [auth q]273Sus scrofaMutation(s): 0 
Gene Names: POLR2C
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Entity ID: 25
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DNA-directed RNA polymerase II subunit RPB4EA [auth r]142Sus scrofaMutation(s): 0 
Gene Names: POLR2D
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Entity ID: 26
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DNA-directed RNA polymerase II subunit EFA [auth s]210Sus scrofaMutation(s): 0 
Gene Names: POLR2E
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit FGA [auth t]127Sus scrofaMutation(s): 0 
Gene Names: POLR2F
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC3HA [auth v]150Sus scrofaMutation(s): 0 
Gene Names: POLR2H
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Entity ID: 29
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DNA-directed RNA polymerase II subunit RPB9IA [auth w]125Sus scrofaMutation(s): 0 
Gene Names: POLR2I
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Entity ID: 30
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RPB10JA [auth x]64Sus scrofaMutation(s): 0 
Gene Names: POLR2L
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Entity ID: 31
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RNA_pol_L_2 domain-containing proteinKA [auth y]117Sus scrofaMutation(s): 0 
Gene Names: POLR2J2
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
RPB12LA [auth z]58Sus scrofaMutation(s): 0 
Gene Names: POLR2K
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Entity ID: 35
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DNA-directed RNA polymerase II subunit RPB7OA [auth u]172Sus scrofaMutation(s): 0 
Gene Names: POLR2G
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Entity ID: 33
MoleculeChainsLengthOrganismImage
DNA (85-MER)MA [auth X]85Homo sapiens
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Entity ID: 34
MoleculeChainsLengthOrganismImage
DNA (85-MER)NA [auth Y]85Homo sapiens
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-05-05
    Type: Initial release
  • Version 1.1: 2021-05-19
    Changes: Database references