7B7U image
Deposition Date 2020-12-11
Release Date 2021-05-19
Last Version Date 2024-11-20
Entry Detail
PDB ID:
7B7U
Keywords:
TRANSCRIPTION
Title:
Cryo-EM structure of mammalian RNA polymerase II in complex with human RPAP2
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Sus scrofa domesticus (Taxon ID: 9825)
Host Organism:
Trichoplusia ni
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
7B7U validation report
Macromolecular Entities
Protein Blast
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
UniProt ID:I3LJR4 Pfam ID:PF04997, PF00623, PF04983, PF05000, PF04998, PF04992, PF04990, PF05001
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit beta
Chain IDs:B
Chain Length:1174
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LGP4 Pfam ID:PF04563, PF04561, PF04565, PF04566, PF04567, PF00562, PF04560
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB3
Gene (Uniprot):POLR2C
Chain IDs:C
Chain Length:271
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LCH3 Pfam ID:PF01193, PF01000
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit E
Gene (Uniprot):POLR2E
Chain IDs:D (auth: E)
Chain Length:210
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LSI7 Pfam ID:PF03871, PF01191
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit F
Chain IDs:E (auth: F)
Chain Length:127
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1VEK9 Pfam ID:PF01192
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC3
Chain IDs:F (auth: H)
Chain Length:150
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LCB2 Pfam ID:PF03870
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB9
Gene (Uniprot):POLR2I
Chain IDs:G (auth: I)
Chain Length:125
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:P60899 Pfam ID:PF02150, PF01096
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Uncharacterized Protein
Chain IDs:H (auth: J)
Chain Length:67
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1VYD0 Pfam ID:PF01194
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RNA_pol_L_2 domain-containing protein
Chain IDs:I (auth: K)
Chain Length:117
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:F1RKE4 Pfam ID:PF13656
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II subunit K
Chain IDs:J (auth: L)
Chain Length:58
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1TRS6 Pfam ID:PF03604
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Putative RNA polymerase II subunit B1 CTD phosphatase RPAP2
Gene (Uniprot):RPAP2
Chain IDs:K (auth: M)
Chain Length:612
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8IXW5 Pfam ID:PF04181
Polymer Type:polypeptide(L)
Molecule:Unknown
Chain IDs:L (auth: N)
Chain Length:30
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
ZN
Primary Citation
Cryo-EM structure of mammalian RNA polymerase II in complex with human RPAP2.
Commun Biol 4 606 606 (2021)
PMID: 34021257 DOI: 10.1038/s42003-021-02088-z

Abstact

Nuclear import of RNA polymerase II (Pol II) involves the conserved factor RPAP2. Here we report the cryo-electron microscopy (cryo-EM) structure of mammalian Pol II in complex with human RPAP2 at 2.8 Å resolution. The structure shows that RPAP2 binds between the jaw domains of the polymerase subunits RPB1 and RPB5. RPAP2 is incompatible with binding of downstream DNA during transcription and is displaced upon formation of a transcription pre-initiation complex.

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Primary Citation of related structures
7B7U