ISDA: 9PVU

Deposition Date 2025-08-03

Release Date 2026-08-05

Last Version Date 2026-08-05

Entry Detail

PDB ID:

9PVU

Keywords:

TRANSCRIPTION

Title:

RNA polymerase II elongation complex with dC at +1 site, 8-oxo-GMP added.

Biological Source:

Source Organism(s):

Saccharomyces cerevisiae S288C (Taxon ID: 559292)
synthetic construct (Taxon ID: 32630)

Expression System(s):

Saccharomyces cerevisiae s288c

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

3.31 Å

R-Value Free:

0.28

R-Value Work:

0.24

R-Value Observed:

0.24

Space Group:

C 1 2 1

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPO21
Chain IDs:D (auth: A)
Chain Length:1733
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P04050 Pfam ID:PF04997, PF00623, PF04983, PF05000, PF04998, PF04992, PF04990, PF05001 EC:2.7.7.6

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPB2
Chain IDs:E (auth: B)
Chain Length:1224
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P08518 Pfam ID:PF04563, PF04561, PF04565, PF04566, PF04567, PF00562, PF04560 EC:2.7.7.6

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPB3
Chain IDs:F (auth: C)
Chain Length:318
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P16370 Pfam ID:PF01193, PF01000

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPB5
Chain IDs:G (auth: E)
Chain Length:215
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P20434 Pfam ID:PF03871, PF01191

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPO26
Chain IDs:H (auth: F)
Chain Length:155
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P20435 Pfam ID:PF01192

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPB8
Chain IDs:I (auth: H)
Chain Length:146
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P20436 Pfam ID:PF03870

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPB9
Chain IDs:J (auth: I)
Chain Length:122
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P27999 Pfam ID:PF02150, PF01096

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPB10
Chain IDs:K (auth: J)
Chain Length:70
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P22139 Pfam ID:PF01194

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase I
Gene (Uniprot):RPB11
Chain IDs:L (auth: K)
Chain Length:120
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P38902 Pfam ID:PF13656

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases
Gene (Uniprot):RPC10
Chain IDs:M (auth: L)
Chain Length:70
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P40422 Pfam ID:PF03604

Polymer Type:polydeoxyribonucleotide
Molecule:Non-template strand DNA
Chain IDs:C (auth: N)
Chain Length:18
Number of Molecules:1
Biological Source:synthetic construct

Polymer Type:polyribonucleotide
Molecule:RNA with 8-oxo-guanine added
Chain IDs:A (auth: R)
Chain Length:10
Number of Molecules:1
Biological Source:synthetic construct

Polymer Type:polydeoxyribonucleotide
Molecule:Template strand DNA
Chain IDs:B (auth: T)
Chain Length:29
Number of Molecules:1
Biological Source:synthetic construct

Ligand Molecules

Primary Citation

RNA polymerase II elongation complex with dC at +1 site, 8-oxo-GMP added.

Hou, P, Oh, J, Wang, D.Show

To Be Published ? ? ? (?)

Primary Citation of related structures

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