› 6vyx

Electron Microscopy
9.9Å resolution

Escherichia coli transcription-translation complex C4 (TTC-C4) containing mRNA with a 21 nt long spacer, transcription factor NusG, and fMet-tRNAs at P-site and E-site

Released:
DOI: 10.2210/pdb6vyx/pdb
PDB entry 6vyx coloured by chain, front view.
PDB entry 6vyx coloured by chain, side view.
PDB entry 6vyx coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of transcription-translation coupling.
Wang C, Molodtsov V, Firlar E, Kaelber JT, Blaha G, Su M, Ebright RH
Science 369 1359-1365 (2020)
PMID: 32820061
Related structures: EMD-21475

Function and Biology Details

Reaction catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 65-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-238552 (preferred)
Entry contents:
55 distinct polypeptide molecules
2 distinct DNA molecules
6 distinct RNA molecules
Macromolecules (63 distinct):
Large ribosomal subunit protein bL21 Chain: 0
Molecule details ›
Chain: 0
Length: 103 amino acids
Theoretical weight: 11.59 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL22 Chain: 1
Molecule details ›
Chain: 1
Length: 110 amino acids
Theoretical weight: 12.25 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL23 Chain: 2
Molecule details ›
Chain: 2
Length: 100 amino acids
Theoretical weight: 11.22 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL24 Chain: 3
Molecule details ›
Chain: 3
Length: 104 amino acids
Theoretical weight: 11.34 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL25 Chain: 4
Molecule details ›
Chain: 4
Length: 94 amino acids
Theoretical weight: 10.71 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
DNA-directed RNA polymerase subunit beta Chain: AA
Molecule details ›
Chain: AA
Length: 1342 amino acids
Theoretical weight: 150.82 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Transcription termination/antitermination protein NusG Chain: AB
Molecule details ›
Chain: AB
Length: 181 amino acids
Theoretical weight: 20.56 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
DNA-directed RNA polymerase subunit alpha Chains: AC, AD
Molecule details ›
Chains: AC, AD
Length: 329 amino acids
Theoretical weight: 36.56 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
DNA-directed RNA polymerase subunit beta' Chain: AE
Molecule details ›
Chain: AE
Length: 1407 amino acids
Theoretical weight: 155.4 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
DNA-directed RNA polymerase subunit omega Chain: AF
Molecule details ›
Chain: AF
Length: 91 amino acids
Theoretical weight: 10.25 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein bS18 Chain: C
Molecule details ›
Chain: C
Length: 75 amino acids
Theoretical weight: 9.01 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein bS20 Chain: E
Molecule details ›
Chain: E
Length: 87 amino acids
Theoretical weight: 9.71 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein bS21 Chain: F
Molecule details ›
Chain: F
Length: 71 amino acids
Theoretical weight: 8.52 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS2 Chain: G
Molecule details ›
Chain: G
Length: 241 amino acids
Theoretical weight: 26.78 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein bS1 Chain: H
Molecule details ›
Chain: H
Length: 557 amino acids
Theoretical weight: 61.24 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS3 Chain: I
Molecule details ›
Chain: I
Length: 233 amino acids
Theoretical weight: 26.03 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS4 Chain: J
Molecule details ›
Chain: J
Length: 206 amino acids
Theoretical weight: 23.51 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS5 Chain: K
Molecule details ›
Chain: K
Length: 167 amino acids
Theoretical weight: 17.63 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein bS6 Chain: L
Molecule details ›
Chain: L
Length: 135 amino acids
Theoretical weight: 15.73 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS7 Chain: M
Molecule details ›
Chain: M
Length: 179 amino acids
Theoretical weight: 20.06 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS8 Chain: N
Molecule details ›
Chain: N
Length: 130 amino acids
Theoretical weight: 14.15 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS9 Chain: O
Molecule details ›
Chain: O
Length: 130 amino acids
Theoretical weight: 14.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS10 Chain: P
Molecule details ›
Chain: P
Length: 103 amino acids
Theoretical weight: 11.76 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS11 Chain: Q
Molecule details ›
Chain: Q
Length: 129 amino acids
Theoretical weight: 13.87 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS12 Chain: R
Molecule details ›
Chain: R
Length: 124 amino acids
Theoretical weight: 13.77 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS14 Chain: S
Molecule details ›
Chain: S
Length: 101 amino acids
Theoretical weight: 11.61 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS15 Chain: T
Molecule details ›
Chain: T
Length: 89 amino acids
Theoretical weight: 10.29 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein bS16 Chain: U
Molecule details ›
Chain: U
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS17 Chain: V
Molecule details ›
Chain: V
Length: 84 amino acids
Theoretical weight: 9.72 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS19 Chain: W
Molecule details ›
Chain: W
Length: 92 amino acids
Theoretical weight: 10.46 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Small ribosomal subunit protein uS13 Chain: X
Molecule details ›
Chain: X
Length: 118 amino acids
Theoretical weight: 13.13 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL27 Chain: b
Molecule details ›
Chain: b
Length: 85 amino acids
Theoretical weight: 9.15 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL28 Chain: c
Molecule details ›
Chain: c
Length: 78 amino acids
Theoretical weight: 9.03 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL29 Chain: e
Molecule details ›
Chain: e
Length: 63 amino acids
Theoretical weight: 7.29 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL30 Chain: f
Molecule details ›
Chain: f
Length: 59 amino acids
Theoretical weight: 6.55 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL31 Chain: g
Molecule details ›
Chain: g
Length: 70 amino acids
Theoretical weight: 7.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL2 Chain: h
Molecule details ›
Chain: h
Length: 273 amino acids
Theoretical weight: 29.92 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL32 Chain: i
Molecule details ›
Chain: i
Length: 57 amino acids
Theoretical weight: 6.46 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL3 Chain: j
Molecule details ›
Chain: j
Length: 209 amino acids
Theoretical weight: 22.28 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL33 Chain: k
Molecule details ›
Chain: k
Length: 55 amino acids
Theoretical weight: 6.39 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL4 Chain: l
Molecule details ›
Chain: l
Length: 201 amino acids
Theoretical weight: 22.12 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL34 Chain: m
Molecule details ›
Chain: m
Length: 46 amino acids
Theoretical weight: 5.4 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL5 Chain: n
Molecule details ›
Chain: n
Length: 179 amino acids
Theoretical weight: 20.33 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL35 Chain: o
Molecule details ›
Chain: o
Length: 65 amino acids
Theoretical weight: 7.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL6 Chain: p
Molecule details ›
Chain: p
Length: 177 amino acids
Theoretical weight: 18.93 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL36A Chain: q
Molecule details ›
Chain: q
Length: 38 amino acids
Theoretical weight: 4.38 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL9 Chain: r
Molecule details ›
Chain: r
Length: 149 amino acids
Theoretical weight: 15.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL13 Chain: s
Molecule details ›
Chain: s
Length: 142 amino acids
Theoretical weight: 16.05 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL14 Chain: t
Molecule details ›
Chain: t
Length: 123 amino acids
Theoretical weight: 13.57 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL15 Chain: u
Molecule details ›
Chain: u
Length: 144 amino acids
Theoretical weight: 15.01 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL16 Chain: v
Molecule details ›
Chain: v
Length: 136 amino acids
Theoretical weight: 15.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL17 Chain: w
Molecule details ›
Chain: w
Length: 119 amino acids
Theoretical weight: 13.59 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein uL18 Chain: x
Molecule details ›
Chain: x
Length: 117 amino acids
Theoretical weight: 12.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL19 Chain: y
Molecule details ›
Chain: y
Length: 115 amino acids
Theoretical weight: 13.16 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Large ribosomal subunit protein bL20 Chain: z
Molecule details ›
Chain: z
Length: 118 amino acids
Theoretical weight: 13.53 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
NT DNA Chain: 5
Molecule details ›
Chain: 5
Length: 27 nucleotides
Theoretical weight: 8.28 KDa
Source organism: synthetic construct
Expression system: Not provided
T DNA Chain: 6
Molecule details ›
Chain: 6
Length: 27 nucleotides
Theoretical weight: 8.16 KDa
Source organism: synthetic construct
Expression system: Not provided
mRNA with 21 nt long spacer Chain: 7
Molecule details ›
Chain: 7
Length: 16 nucleotides
Theoretical weight: 5.2 KDa
Source organism: synthetic construct
Expression system: Not provided
E-site and P-site tRNA (fMet) Chains: A, B
Molecule details ›
Chains: A, B
Length: 76 nucleotides
Theoretical weight: 24.5 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Sequence domains: tRNA
16S ribosomal RNA Chain: D
Molecule details ›
Chain: D
Length: 1542 nucleotides
Theoretical weight: 499.69 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Sequence domains: Bacterial small subunit ribosomal RNA
mRNA in the ribosomal RNA entrance pore Chain: Y
Molecule details ›
Chain: Y
Length: 3 nucleotides
Theoretical weight: 874 Da
Source organism: synthetic construct
Expression system: Not provided
23S ribosomal RNA Chain: a
Molecule details ›
Chain: a
Length: 2904 nucleotides
Theoretical weight: 941.64 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Sequence domains: Bacterial large subunit ribosomal RNA
5S ribosomal RNA Chain: d
Molecule details ›
Chain: d
Length: 120 nucleotides
Theoretical weight: 38.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Sequence domains: 5S ribosomal RNA

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: 9.9Å
Relevant EMDB volumes: EMD-21475
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

19 review citations

Coupled Transcription-Translation in Prokaryotes: An Old Couple With New Surprises.
Irastortza-Olaziregi et al. (2020)
18 more

1 mention without citation

Structural basis of transcription-translation coupling.
Wang et al. (2020)