9FD2 image
Deposition Date 2024-05-16
Release Date 2024-11-13
Last Version Date 2025-07-09
Entry Detail
PDB ID:
9FD2
Keywords:
Title:
Structure of Pol II-TC-NER-STK19 complex
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.40 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit
Gene (Uniprot):POLR2A
Chain IDs:A
Chain Length:1970
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit beta
Gene (Uniprot):POLR2B
Chain IDs:B
Chain Length:1300
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB3
Gene (Uniprot):POLR2C
Chain IDs:C
Chain Length:152
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II subunit D
Gene (Uniprot):POLR2D
Chain IDs:D
Chain Length:142
Number of Molecules:1
Biological Source:Sus scrofa domesticus
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 domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC2
Gene (Uniprot):POLR2F
Chain IDs:F
Chain Length:127
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit
Gene (Uniprot):POLR2G
Chain IDs:G
Chain Length:172
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC3
Gene (Uniprot):POLR2H
Chain IDs:H
Chain Length:150
Number of Molecules:1
Biological Source:Sus scrofa domesticus
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 domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC5
Chain IDs:J
Chain Length:67
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB11-a
Gene (Uniprot):POLR2J
Chain IDs:K
Chain Length:117
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II, I and III subunit K
Gene (Uniprot):POLR2K
Chain IDs:L
Chain Length:58
Number of Molecules:1
Biological Source:Sus scrofa domesticus
Polymer Type:polyribonucleotide
Molecule:RNA
Chain IDs:O (auth: M)
Chain Length:25
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Molecule:Non-template DNA
Chain IDs:N
Chain Length:60
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polydeoxyribonucleotide
Molecule:Template DNA
Chain IDs:P (auth: T)
Chain Length:60
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DNA excision repair protein ERCC-8
Gene (Uniprot):ERCC8
Chain IDs:Q (auth: a)
Chain Length:1970
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DNA damage-binding protein 1
Gene (Uniprot):DDB1
Chain IDs:R (auth: b)
Chain Length:1300
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DET1- and DDB1-associated protein 1
Gene (Uniprot):DDA1
Chain IDs:S (auth: c)
Chain Length:152
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:UV-stimulated scaffold protein A
Gene (Uniprot):UVSSA
Chain IDs:V (auth: d)
Chain Length:142
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:DNA excision repair protein ERCC-6
Gene (Uniprot):ERCC6
Chain IDs:U (auth: e)
Chain Length:210
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Transcription elongation factor 1 homolog
Gene (Uniprot):ELOF1
Chain IDs:M (auth: f)
Chain Length:127
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Inactive serine/threonine-protein kinase 19
Gene (Uniprot):STK19
Chain IDs:T (auth: g)
Chain Length:172
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
STK19 drives transcription-coupled repair by stimulating repair complex stability, RNA Pol II ubiquitylation, and TFIIH recruitment.
Mol.Cell 84 4740 ? (2024)
PMID: 39547223 DOI: 10.1016/j.molcel.2024.10.030

Abstact

Transcription-coupled nucleotide excision repair (TC-NER) efficiently eliminates DNA damage that impedes gene transcription by RNA polymerase II (RNA Pol II). TC-NER is initiated by the recognition of lesion-stalled RNA Pol II by CSB, which recruits the CRL4CSA ubiquitin ligase and UVSSA. RNA Pol II ubiquitylation at RPB1-K1268 by CRL4CSA serves as a critical TC-NER checkpoint, governing RNA Pol II stability and initiating DNA damage excision by TFIIH recruitment. However, the precise regulatory mechanisms of CRL4CSA activity and TFIIH recruitment remain elusive. Here, we reveal human serine/threonine-protein kinase 19 (STK19) as a TC-NER factor, which is essential for correct DNA damage removal and subsequent transcription restart. Cryogenic electron microscopy (cryo-EM) studies demonstrate that STK19 is an integral part of the RNA Pol II-TC-NER complex, bridging CSA, UVSSA, RNA Pol II, and downstream DNA. STK19 stimulates TC-NER complex stability and CRL4CSA activity, resulting in efficient RNA Pol II ubiquitylation and correct UVSSA and TFIIH binding. These findings underscore the crucial role of STK19 as a core TC-NER component.

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