ISDA: 6CNF

Deposition Date 2018-03-08

Release Date 2018-08-22

Last Version Date 2024-11-20

Entry Detail

PDB ID:

6CNF

Keywords:

transcription/dna

Title:

Yeast RNA polymerase III elongation complex

Biological Source:

Source Organism(s):

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Taxon ID: 559292)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

4.50 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPO31
Chain IDs:A
Chain Length:1460
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P04051 Pfam ID:PF04997, PF00623, PF04983, PF05000, PF04998

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RET1
Chain IDs:B
Chain Length:1149
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P22276 Pfam ID:PF04563, PF04561, PF04565, PF04566, PF04567, PF00562, PF04560

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPC40
Chain IDs:C
Chain Length:335
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P07703 Pfam ID:PF01193, PF01000

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC17
Chain IDs:D
Chain Length:161
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P47076 Pfam ID:PF03874

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPB5
Chain IDs:E
Chain Length:215
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P20434 Pfam ID:PF03871, PF01191

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPO26
Chain IDs:F
Chain Length:155
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P20435 Pfam ID:PF01192

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC25
Chain IDs:G
Chain Length:212
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P35718 Pfam ID:PF03876, PF08292

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPB8
Chain IDs:H
Chain Length:146
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P20436 Pfam ID:PF03870

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC11
Chain IDs:I
Chain Length:110
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:Q04307 Pfam ID:PF02150, PF01096

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPB10
Chain IDs:J
Chain Length:70
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P22139 Pfam ID:PF01194

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPC19
Chain IDs:K
Chain Length:142
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P28000 Pfam ID:PF13656

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPC10
Chain IDs:L
Chain Length:70
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P40422 Pfam ID:PF03604

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC37
Chain IDs:M
Chain Length:282
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P36121 Pfam ID:PF04801

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC53
Chain IDs:N
Chain Length:422
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P25441 Pfam ID:PF05132

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC82
Chain IDs:O
Chain Length:654
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P32349 Pfam ID:PF08221, PF05645, PF22536, PF20912

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC34
Chain IDs:P
Chain Length:317
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P32910 Pfam ID:PF05158

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPC31
Chain IDs:Q
Chain Length:251
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Saccharomyces cerevisiae S288c

UniProt ID:P17890 Pfam ID:PF11705

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Transcription factor IIIB 70
Gene (Uniprot):SPT15, BRF1
Mutagens:C438S
Chain IDs:R
Chain Length:736
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt ID:P29056,P13393 Pfam ID:PF08271, PF00382, PF00352, PF07741

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Transcription factor TFIIIB c
Gene (Uniprot):BDP1
Chain IDs:S
Chain Length:594
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Saccharomyces cerevisiae S288c

UniProt ID:P46678 Pfam ID:PF00249

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (79-MER)
Chain IDs:T (auth: X)
Chain Length:79
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288c

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (79-MER)
Chain IDs:U (auth: Y)
Chain Length:79
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288c

Ligand Molecules

Primary Citation

Structural visualization of RNA polymerase III transcription machineries.

Han, Y, Yan, C, Fishbain, S, Ivanov, I, He, Y.Show

Cell Discov 4 40 40 (2018)

PMID: 30083386 DOI: 10.1038/s41421-018-0044-z

Abstact

RNA polymerase III (Pol III) transcription initiation requires the action of the transcription factor IIIB (TFIIIB) and is highly regulated. Here, we determine the structures of Pol III pre-initiation complexes (PICs) using single particle cryo-electron microscopy (cryo-EM). We observe stable Pol III-TFIIIB complexes using nucleic acid scaffolds mimicking various functional states, in which TFIIIB tightly encircles the upstream promoter DNA. There is an intricate interaction between TFIIIB and Pol III, which stabilizes the winged-helix domains of the C34 subunit of Pol III over the active site cleft. The architecture of Pol III PIC more resembles that of the Pol II PIC than the Pol I PIC. In addition, we also obtain a 3D reconstruction of Pol III in complex with TFIIIB using the elongation complex (EC) scaffold, shedding light on the mechanism of facilitated recycling of Pol III prior to transcription re-initiation.

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Primary Citation of related structures

Abstact

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