› 8gzg

Electron Microscopy
3.13Å resolution

Cryo-EM structure of Synechocystis sp. PCC 6803 RPitc

Released:
DOI: 10.2210/pdb8gzg/pdb
PDB entry 8gzg coloured by chain, front view.
PDB entry 8gzg coloured by chain, side view.
PDB entry 8gzg coloured by chain, top view.
Source organism: Synechocystis sp. PCC 6803
Primary publication:
Cryo-EM structure of Synechocystis sp. PCC 6803 CTP-bound RPitc
Shen LQ, You LL, Zhang Y
Proc. Natl. Acad. Sci. U.S.A. (2023)
Related structures: EMD-34397

Function and Biology Details

Reaction catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
PDBe Complex ID:
PDB-CPX-207813 (preferred)
Entry contents:
6 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (9 distinct):
DNA-directed RNA polymerase subunit alpha Chains: A, B
Molecule details ›
Chains: A, B
Length: 328 amino acids
Theoretical weight: 36.66 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P73297 (Residues: 1-314; Coverage: 100%)
Gene names: rpoA, sll1818
Sequence domains:
DNA-directed RNA polymerase subunit beta Chain: C
Molecule details ›
Chain: C
Length: 1104 amino acids
Theoretical weight: 123.72 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P77965 (Residues: 1-1102; Coverage: 100%)
Gene names: rpoB, sll1787
Sequence domains:
DNA-directed RNA polymerase subunit gamma Chain: D
Molecule details ›
Chain: D
Length: 626 amino acids
Theoretical weight: 71.07 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P74177 (Residues: 1-626; Coverage: 100%)
Gene names: rpoC1, slr1265
Sequence domains:
DNA-directed RNA polymerase subunit omega Chain: E
Molecule details ›
Chain: E
Length: 76 amino acids
Theoretical weight: 8.75 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P74352 (Residues: 1-76; Coverage: 100%)
Gene names: rpoZ, ssl2982
Sequence domains: RNA polymerase Rpb6
RNA polymerase sigma factor SigA Chain: F
Molecule details ›
Chain: F
Length: 429 amino acids
Theoretical weight: 50.34 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P74565 (Residues: 1-425; Coverage: 100%)
Gene names: rpoD, rpoD1, sigA, slr0653
Sequence domains:
DNA-directed RNA polymerase subunit beta' Chain: Z
Molecule details ›
Chain: Z
Length: 1323 amino acids
Theoretical weight: 145.37 KDa
Source organism: Synechocystis sp. PCC 6803
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P73334 (Residues: 1-1317; Coverage: 100%)
Gene names: rpoC2, sll1789
Sequence domains:
Nontemplate strand DNA Chain: 1
Molecule details ›
Chain: 1
Length: 67 nucleotides
Theoretical weight: 20.81 KDa
Template strand DNA Chain: 2
Molecule details ›
Chain: 2
Length: 67 nucleotides
Theoretical weight: 20.67 KDa
RNA (5'-R(*UP*CP*GP*A)-3') Chain: 3
Molecule details ›
Chain: 3
Length: 4 nucleotides
Theoretical weight: 1.24 KDa

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.13Å
Relevant EMDB volumes: EMD-34397
Expression system: Escherichia coli BL21(DE3)

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