› 9bcu

Electron Microscopy
2.2Å resolution

Cryo-EM structure of Thermococcus kodakarensis FttA-dependent transcription pre-termination complex containing 52 nt RNA

Released:
DOI: 10.2210/pdb9bcu/pdb
PDB entry 9bcu coloured by chain, front view.
PDB entry 9bcu coloured by chain, side view.
PDB entry 9bcu coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of archaeal FttA-dependent transcription termination.
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024)
PMID: 39322680
Related structures: EMD-44439

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero octadecamer (preferred)
PDBe Complex ID:
PDB-CPX-247608 (preferred)
Entry contents:
14 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (17 distinct):
DNA-directed RNA polymerase subunit A' Chain: A
Molecule details ›
Chain: A
Length: 906 amino acids
Theoretical weight: 103.04 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit B Chain: B
Molecule details ›
Chain: B
Length: 1123 amino acids
Theoretical weight: 127.47 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit A" Chain: C
Molecule details ›
Chain: C
Length: 391 amino acids
Theoretical weight: 43.73 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit D Chain: D
Molecule details ›
Chain: D
Length: 261 amino acids
Theoretical weight: 29.66 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit E Chain: E
Molecule details ›
Chain: E
Length: 190 amino acids
Theoretical weight: 21.89 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit F Chain: F
Molecule details ›
Chain: F
Length: 122 amino acids
Theoretical weight: 14.52 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit H Chain: H
Molecule details ›
Chain: H
Length: 82 amino acids
Theoretical weight: 9.52 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit K Chain: K
Molecule details ›
Chain: K
Length: 60 amino acids
Theoretical weight: 6.58 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit L Chain: L
Molecule details ›
Chain: L
Length: 94 amino acids
Theoretical weight: 11.01 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit N Chain: N
Molecule details ›
Chain: N
Length: 65 amino acids
Theoretical weight: 7.6 KDa
Source organism: Thermococcus kodakarensis
DNA-directed RNA polymerase subunit P Chain: P
Molecule details ›
Chain: P
Length: 49 amino acids
Theoretical weight: 5.55 KDa
Source organism: Thermococcus kodakarensis
Transcription elongation factor Spt5 Chain: G
Molecule details ›
Chain: G
Length: 152 amino acids
Theoretical weight: 16.78 KDa
Source organism: Thermococcus kodakarensis
Expression system: Escherichia coli
Transcription elongation factor Spt4 Chain: I
Molecule details ›
Chain: I
Length: 73 amino acids
Theoretical weight: 8.56 KDa
Source organism: Thermococcus kodakarensis
Expression system: Escherichia coli
Transcription termination factor FttA Chains: J, M
Molecule details ›
Chains: J, M
Length: 648 amino acids
Theoretical weight: 73.47 KDa
Source organism: Thermococcus kodakarensis
Expression system: Escherichia coli
non-template strand DNA Chain: 5
Molecule details ›
Chain: 5
Length: 36 nucleotides
Theoretical weight: 11.1 KDa
Source organism: synthetic construct
Expression system: Not provided
template strand DNA Chain: 6
Molecule details ›
Chain: 6
Length: 36 nucleotides
Theoretical weight: 11.06 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (29-MER) Chain: 7
Molecule details ›
Chain: 7
Length: 52 nucleotides
Theoretical weight: 16.03 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand ZN 8 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.2Å
Relevant EMDB volumes: EMD-44439
Expression systems:
  • Escherichia coli
  • Not provided

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