PDBsum entry 9g2c

Transcription

PDB id: 9g2c

Contents

Protein chains

1172 a.a.

1127 a.a.

304 a.a.

181 a.a.

103 a.a.

60 a.a.

131 a.a.

57 a.a.

68 a.a.

97 a.a.

44 a.a.

71 a.a.

86 a.a.

DNA/RNA

Metals

_ZN ×4

PDB id:

9g2c

Name:

Transcription

Title:

Yeast RNA polymerase i elongation complex stalled by an apurinic site, open state

Structure:

DNA-directed RNA polymerase i subunit rpa190. Chain: a. Synonym: DNA-directed RNA polymerase i 190 kda polypeptide,a190,DNA- directed RNA polymerase i largest subunit. DNA-directed RNA polymerase i subunit rpa135. Chain: b. Synonym: DNA-directed RNA polymerase i 135 kda polypeptide,a135,DNA- directed RNA polymerase i polypeptide 2,RNA polymerase i subunit 2. DNA-directed RNA polymerases i and iii subunit rpac1.

Source:

Saccharomyces cerevisiae. Brewer's yeast. Organism_taxid: 4932. Synthetic: yes. Organism_taxid: 4932

Authors:

A.Santos-Aledo,A.Plaza-Pegueroles,F.M.Ruiz,C.Fernandez-Tornero

Key ref:

A.Santos-Aledo et al. (2025). Cryo-Em uncovers a sequential mechanism for RNA polym pausing and stalling at abasic DNA lesions.. Nat commun, 16, 5254. PubMed id: 40480971 DOI: 10.1038/S41467-025-60536-4

Date:

10-Jul-24 Release date: 18-Jun-25

Protein chain

P10964  (RPA1_YEAST) -  DNA-directed RNA polymerase I subunit RPA190 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 1664 a.a.

Struc: 1172 a.a.*

Protein chain

P22138  (RPA2_YEAST) -  DNA-directed RNA polymerase I subunit RPA135 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 1203 a.a.

Struc: 1127 a.a.

Protein chain

P07703  (RPAC1_YEAST) -  DNA-directed RNA polymerases I and III subunit RPAC1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 335 a.a.

Struc: 304 a.a.

Protein chain

P20434  (RPAB1_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 215 a.a.

Struc: 181 a.a.

Protein chain

P20435  (RPAB2_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 155 a.a.

Struc: 103 a.a.

Protein chain

P46669  (RPA43_YEAST) -  DNA-directed RNA polymerase I subunit RPA43 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 326 a.a.

Struc: 60 a.a.

Protein chain

P20436  (RPAB3_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 146 a.a.

Struc: 131 a.a.

Protein chain

P32529  (RPA12_YEAST) -  DNA-directed RNA polymerase I subunit RPA12 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 125 a.a.

Struc: 57 a.a.

Protein chain

P22139  (RPAB5_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC5 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 70 a.a.

Struc: 68 a.a.

Protein chain

P28000  (RPAC2_YEAST) -  DNA-directed RNA polymerases I and III subunit RPAC2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 142 a.a.

Struc: 97 a.a.

Protein chain

P40422  (RPAB4_YEAST) -  DNA-directed RNA polymerases I, II, and III subunit RPABC4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 70 a.a.

Struc: 44 a.a.

Protein chain

Q01080  (RPA49_YEAST) -  DNA-directed RNA polymerase I subunit RPA49 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 415 a.a.

Struc: 71 a.a.*

Protein chain

P47006  (RPA34_YEAST) -  DNA-directed RNA polymerase I subunit RPA34 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 233 a.a.

Struc: 86 a.a.

* PDB and UniProt seqs differ at 41 residue positions (black crosses)

DNA/RNA chains

A-A-U-C-G-A-G-A-G 9 bases

T-T-C-A-T-A-C-G-C-C-T-C-T-C-T-G-C-T-T-A-T-C-G-G-T-A-G 27 bases

C-T-A-C-C-G-A-T-A-A-G-C-A-G-A-T-3DR-C-T-C-T-C-G-A-T-T-G-C-G-T-A-T-G-A-A 35 bases

Enzyme reactions

• Enzyme class: Chains A, B: E.C.2.7.7.6 - DNA-directed Rna polymerase.
• Reaction: RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate

Molecule diagrams generated from .mol files obtained from the KEGG ftp site