7OOP image
Deposition Date 2021-05-28
Release Date 2021-10-06
Last Version Date 2025-07-09
Entry Detail
PDB ID:
7OOP
Keywords:
Title:
Pol II-CSB-CSA-DDB1-UVSSA-PAF-SPT6 (Structure 3)
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Sus scrofa (Taxon ID: 9823)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.90 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB1
Gene (Uniprot):POLR2A
Chain IDs:A
Chain Length:396
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit beta
Gene (Uniprot):POLR2B
Chain IDs:B
Chain Length:1174
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB3
Gene (Uniprot):POLR2C
Chain IDs:C
Chain Length:709
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:RPOL4c domain-containing protein
Gene (Uniprot):POLR2D
Chain IDs:D
Chain Length:1140
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit E
Gene (Uniprot):POLR2E
Chain IDs:E
Chain Length:210
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit F
Chain IDs:F
Chain Length:127
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB7
Chain IDs:G
Chain Length:172
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC3
Chain IDs:H
Chain Length:150
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB9
Gene (Uniprot):POLR2I
Chain IDs:I
Chain Length:125
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC5
Gene (Uniprot):POLR2L
Chain IDs:J
Chain Length:67
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:RNA_pol_L_2 domain-containing protein
Chain IDs:K
Chain Length:117
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II subunit K
Chain IDs:L
Chain Length:58
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:Transcription elongation factor SPT6
Gene (Uniprot):SUPT6H
Chain IDs:M
Chain Length:1726
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Molecule:NTS
Chain IDs:N
Chain Length:47
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polyribonucleotide
Molecule:RNA
Chain IDs:O (auth: P)
Chain Length:45
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:LEO1 helix
Chain IDs:P (auth: R)
Chain Length:40
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:RNA polymerase-associated protein CTR9 homolog
Gene (Uniprot):CTR9
Chain IDs:Q (auth: S)
Chain Length:1173
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Molecule:TS
Chain IDs:R (auth: T)
Chain Length:47
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:RNA polymerase-associated protein LEO1
Gene (Uniprot):LEO1
Chain IDs:S (auth: U)
Chain Length:666
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II-associated factor 1 homolog
Gene (Uniprot):PAF1
Chain IDs:T (auth: V)
Chain Length:531
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:WD repeat-containing protein 61
Gene (Uniprot):SKIC8
Chain IDs:U (auth: Y)
Chain Length:305
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Parafibromin
Gene (Uniprot):CDC73
Chain IDs:V (auth: Z)
Chain Length:531
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DNA excision repair protein ERCC-8
Gene (Uniprot):ERCC8
Chain IDs:W (auth: a)
Chain Length:396
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DNA excision repair protein ERCC-6
Gene (Uniprot):ERCC6
Chain IDs:X (auth: b)
Chain Length:1174
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:UV-stimulated scaffold protein A
Gene (Uniprot):UVSSA
Chain IDs:Y (auth: c)
Chain Length:709
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DNA damage-binding protein 1
Gene (Uniprot):DDB1
Chain IDs:Z (auth: d)
Chain Length:1140
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Structural basis of human transcription-DNA repair coupling.
Nature 598 368 372 (2021)
PMID: 34526721 DOI: 10.1038/s41586-021-03906-4

Abstact

Transcription-coupled DNA repair removes bulky DNA lesions from the genome1,2 and protects cells against ultraviolet (UV) irradiation3. Transcription-coupled DNA repair begins when RNA polymerase II (Pol II) stalls at a DNA lesion and recruits the Cockayne syndrome protein CSB, the E3 ubiquitin ligase, CRL4CSA and UV-stimulated scaffold protein A (UVSSA)3. Here we provide five high-resolution structures of Pol II transcription complexes containing human transcription-coupled DNA repair factors and the elongation factors PAF1 complex (PAF) and SPT6. Together with biochemical and published3,4 data, the structures provide a model for transcription-repair coupling. Stalling of Pol II at a DNA lesion triggers replacement of the elongation factor DSIF by CSB, which binds to PAF and moves upstream DNA to SPT6. The resulting elongation complex, ECTCR, uses the CSA-stimulated translocase activity of CSB to pull on upstream DNA and push Pol II forward. If the lesion cannot be bypassed, CRL4CSA spans over the Pol II clamp and ubiquitylates the RPB1 residue K1268, enabling recruitment of TFIIH to UVSSA and DNA repair. Conformational changes in CRL4CSA lead to ubiquitylation of CSB and to release of transcription-coupled DNA repair factors before transcription may continue over repaired DNA.

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Primary Citation of related structures