9FD2

Structure of Pol II-TC-NER-STK19 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structure of Pol II-TC-NER-STK19 complex

Lee, S.-H.Sixma, T.K.

(2024) Mol Cell 


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit1,970Sus scrofa domesticusMutation(s): 0 
EC: 2.7.7.6
UniProt
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta1,300Sus scrofa domesticusMutation(s): 0 
EC: 2.7.7.6
UniProt
Find proteins for I3LGP4 (Sus scrofa)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit RPB3275Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
RNA polymerase II subunit D142Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit E210Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC2127Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit172Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC3150Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit RPB9125Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC567Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase II subunit RPB11-a117Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
RNA polymerase II, I and III subunit K58Sus scrofa domesticusMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription elongation factor 1 homologM [auth f]85Homo sapiensMutation(s): 0 
Gene Names: ELOF1
UniProt & NIH Common Fund Data Resources
Find proteins for P60002 (Homo sapiens)
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PHAROS:  P60002
GTEx:  ENSG00000130165 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
DNA excision repair protein ERCC-8Q [auth a]408Homo sapiensMutation(s): 0 
Gene Names: ERCC8CKN1CSA
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GTEx:  ENSG00000049167 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
DNA damage-binding protein 1R [auth b]1,160Homo sapiensMutation(s): 0 
Gene Names: DDB1XAP1
UniProt & NIH Common Fund Data Resources
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GTEx:  ENSG00000167986 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
DET1- and DDB1-associated protein 1S [auth c]152Homo sapiensMutation(s): 0 
Gene Names: DDA1C19orf58PCIA1
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GTEx:  ENSG00000130311 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Inactive serine/threonine-protein kinase 19T [auth g]257Homo sapiensMutation(s): 0 
Gene Names: STK19G11RP1
UniProt & NIH Common Fund Data Resources
Find proteins for P49842 (Homo sapiens)
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GTEx:  ENSG00000204344 
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UniProt GroupP49842
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
DNA excision repair protein ERCC-6U [auth e]1,493Homo sapiensMutation(s): 0 
Gene Names: ERCC6CSB
EC: 3.6.4
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Find proteins for Q03468 (Homo sapiens)
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GTEx:  ENSG00000225830 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
UV-stimulated scaffold protein AV [auth d]729Homo sapiensMutation(s): 0 
Gene Names: UVSSAKIAA1530
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PHAROS:  Q2YD98
GTEx:  ENSG00000163945 
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Entity ID: 14
MoleculeChains LengthOrganismImage
Non-template DNA60Homo sapiens
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Entity ID: 15
MoleculeChains LengthOrganismImage
RNAO [auth M]25Homo sapiens
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Entity ID: 16
MoleculeChains LengthOrganismImage
Template DNAP [auth T]60Homo sapiens
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Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
AA [auth C]
BA [auth I]
CA [auth I]
DA [auth J]
EA [auth L]
AA [auth C],
BA [auth I],
CA [auth I],
DA [auth J],
EA [auth L],
FA [auth f],
GA [auth d],
W [auth A],
X [auth A],
Z [auth B]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG (Subject of Investigation/LOI)
Query on MG

Download Ideal Coordinates CCD File 
Y [auth A]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Netherlands Organisation for Scientific Research (NWO)NetherlandsTOP 714.017.003
Oncode InstituteNetherlands--

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-13
    Type: Initial release