PDBsum entry 9msh

Transcription

PDB id: 9msh

Contents

Protein chains

307 a.a.

223 a.a.

1340 a.a.

1350 a.a.

75 a.a.

369 a.a.

DNA/RNA

Ligands

POP

Metals

_ZN ×2

_MG

Waters ×348

PDB id:

9msh

Name:

Transcription

Title:

De novo sign RNA polymerase open complex (rpo)

Structure:

DNA-directed RNA polymerase subunit alpha. Chain: g, h. Synonym: rnap subunit alpha,RNA polymerase subunit alpha, transcriptase subunit alpha. Engineered: yes. DNA-directed RNA polymerase subunit beta. Chain: i. Synonym: rnap subunit beta,RNA polymerase subunit beta,transcriptase subunit beta.

Source:

Escherichia coli. Organism_taxid: 562. Gene: rpoa, pez, phs, sez, b3295, jw3257. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Gene: rpob, gron, nitb, rif, ron, stl, stv, tabd, b3987, jw3950. Gene: rpoc, tabb, b3988, jw3951. Gene: rpoz, b3649, jw3624. Gene: rpon, glnf, ntra, b3202, jw3169.

Authors:

A.U.Mueller,S.A.Darst

Key ref:

A.U.Mueller et al. (2025). Real-Time capture of sigma n transcription initiation intermediates reveals mechanism of atpase-Driven acti by limited unfolding.. Nat commun, 16, 7138. PubMed id: 40759887 DOI: 10.1038/S41467-025-61837-4

Date:

09-Jan-25 Release date: 13-Aug-25

Protein chain

P0A7Z4  (RPOA_ECOLI) -  DNA-directed RNA polymerase subunit alpha from Escherichia coli (strain K12)

Seq: 329 a.a.

Struc: 307 a.a.

Protein chain

P0A7Z4  (RPOA_ECOLI) -  DNA-directed RNA polymerase subunit alpha from Escherichia coli (strain K12)

Seq: 329 a.a.

Struc: 223 a.a.

Protein chain

P0A8V2  (RPOB_ECOLI) -  DNA-directed RNA polymerase subunit beta from Escherichia coli (strain K12)

Seq: 1342 a.a.

Struc: 1340 a.a.

Protein chain

P0A8T7  (RPOC_ECOLI) -  DNA-directed RNA polymerase subunit beta' from Escherichia coli (strain K12)

Seq: 1407 a.a.

Struc: 1350 a.a.

Protein chain

P0A800  (RPOZ_ECOLI) -  DNA-directed RNA polymerase subunit omega from Escherichia coli (strain K12)

Seq: 91 a.a.

Struc: 75 a.a.

Protein chain

P24255  (RP54_ECOLI) -  RNA polymerase sigma-54 factor from Escherichia coli (strain K12)

Seq: 477 a.a.

Struc: 369 a.a.

DNA/RNA chains

C-A-G-A-A-A-T-T-G-G-C-A-C-G-A-A-A-A-T-T-G-C-A-A-T-A-A-A-T-A-C-A-A-C-G-A-A-C-A- 49 bases

C-C-T-C-C-A-T-T-T-T-T-G-T-T-C-G-T-T-G-T-A-T-T-T-A-T-T-G-C-A-A-T-T-T-T-C-G-T-G- 49 bases

Enzyme reactions

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

RNA(n) + ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate (Bound ligand (Het Group name = POP) corresponds exactly)

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