6x7k

Electron Microscopy
3.1Å resolution

Cryo-EM structure of an Escherichia coli coupled transcription-translation complex B3 (TTC-B3) containing an mRNA with a 24 nt long spacer, transcription factors NusA and NusG, and fMet-tRNAs at P-site and E-site

Released:
Source organism: Escherichia coli
Related structures: EMD-22087

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 68-mer (preferred)
Entry contents:
59 distinct polypeptide molecules
2 distinct DNA molecules
5 distinct RNA molecules
Macromolecules (66 distinct):
50S ribosomal protein L21 Chain: 0
Molecule details ›
Chain: 0
Length: 103 amino acids
Theoretical weight: 11.59 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L22 Chain: 1
Molecule details ›
Chain: 1
Length: 110 amino acids
Theoretical weight: 12.25 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L23 Chain: 2
Molecule details ›
Chain: 2
Length: 100 amino acids
Theoretical weight: 11.22 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L24 Chain: 3
Molecule details ›
Chain: 3
Length: 104 amino acids
Theoretical weight: 11.34 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L25 Chain: 4
Molecule details ›
Chain: 4
Length: 94 amino acids
Theoretical weight: 10.71 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: D7XH79 (Residues: 1-94; Coverage: 100%)
Gene names: HMPREF9536_00351, rplY
Sequence domains: Ribosomal L25p family
50S ribosomal protein L10 Chain: 9
Molecule details ›
Chain: 9
Length: 165 amino acids
Theoretical weight: 17.74 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
UniProt:
  • Canonical: P0A8V4 (Residues: 1-1342; Coverage: 100%)
Gene names: ECs4910, Z5560, rpoB
Sequence domains:
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: 155.37 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A4S1NBU2 (Residues: 1-1407; Coverage: 100%)
Gene names: BvCmsKKP036_03580, EYX47_21890, rpoC
Sequence domains:
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
UniProt:
  • Canonical: P0A802 (Residues: 1-91; Coverage: 100%)
Gene names: ECs4524, Z5075, rpoZ
Sequence domains: RNA polymerase Rpb6
Transcription termination/antitermination protein NusA Chain: AG
Molecule details ›
Chain: AG
Length: 495 amino acids
Theoretical weight: 54.93 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: U9XV73 (Residues: 1-495; Coverage: 100%)
Gene names: HMPREF1589_04181, nusA
Sequence domains:
30S ribosomal protein S18 Chain: C
Molecule details ›
Chain: C
Length: 75 amino acids
Theoretical weight: 9.01 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0E2KXL3 (Residues: 1-75; Coverage: 100%)
Gene names: G925_04532, rpsR
Sequence domains: Ribosomal protein S18
30S ribosomal protein S20 Chain: E
Molecule details ›
Chain: E
Length: 87 amino acids
Theoretical weight: 9.71 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S21 Chain: F
Molecule details ›
Chain: F
Length: 71 amino acids
Theoretical weight: 8.52 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0E2L2J1 (Residues: 1-71; Coverage: 100%)
Gene names: G925_03304, rpsU
Sequence domains: Ribosomal protein S21
30S ribosomal protein S2 Chain: G
Molecule details ›
Chain: G
Length: 241 amino acids
Theoretical weight: 26.78 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S1 Chain: H
Molecule details ›
Chain: H
Length: 557 amino acids
Theoretical weight: 61.24 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A1X3LHG1 (Residues: 1-557; Coverage: 100%)
Gene name: EAXG_00304
Sequence domains: S1 RNA binding domain
30S ribosomal protein S3 Chain: I
Molecule details ›
Chain: I
Length: 233 amino acids
Theoretical weight: 26.03 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: B7MCS9 (Residues: 1-233; Coverage: 100%)
Gene names: ECS88_3701, rpsC
Sequence domains:
30S ribosomal protein S4 Chain: J
Molecule details ›
Chain: J
Length: 206 amino acids
Theoretical weight: 23.51 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S5 Chain: K
Molecule details ›
Chain: K
Length: 167 amino acids
Theoretical weight: 17.63 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S6 Chain: L
Molecule details ›
Chain: L
Length: 135 amino acids
Theoretical weight: 15.73 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P02358 (Residues: 1-135; Coverage: 100%)
Gene names: JW4158, b4200, rpsF
Sequence domains: Ribosomal protein S6
30S ribosomal protein S7 Chain: M
Molecule details ›
Chain: M
Length: 179 amino acids
Theoretical weight: 20.06 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S8 Chain: N
Molecule details ›
Chain: N
Length: 130 amino acids
Theoretical weight: 14.15 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S9 Chain: O
Molecule details ›
Chain: O
Length: 130 amino acids
Theoretical weight: 14.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S10 Chain: P
Molecule details ›
Chain: P
Length: 103 amino acids
Theoretical weight: 11.76 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S11 Chain: Q
Molecule details ›
Chain: Q
Length: 129 amino acids
Theoretical weight: 13.87 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: B7MCR3 (Residues: 1-129; Coverage: 100%)
Gene names: ECS88_3685, rpsK
Sequence domains: Ribosomal protein S11
30S ribosomal protein S12 Chain: R
Molecule details ›
Chain: R
Length: 124 amino acids
Theoretical weight: 13.77 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S14 Chain: S
Molecule details ›
Chain: S
Length: 101 amino acids
Theoretical weight: 11.61 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S15 Chain: T
Molecule details ›
Chain: T
Length: 89 amino acids
Theoretical weight: 10.29 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S16 Chain: U
Molecule details ›
Chain: U
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: B7MIU7 (Residues: 1-82; Coverage: 100%)
Gene names: ECS88_2795, rpsP
Sequence domains: Ribosomal protein S16
30S ribosomal protein S17 Chain: V
Molecule details ›
Chain: V
Length: 84 amino acids
Theoretical weight: 9.72 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S19 Chain: W
Molecule details ›
Chain: W
Length: 92 amino acids
Theoretical weight: 10.46 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
30S ribosomal protein S13 Chain: X
Molecule details ›
Chain: X
Length: 118 amino acids
Theoretical weight: 13.13 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L11 Chain: Y
Molecule details ›
Chain: Y
Length: 142 amino acids
Theoretical weight: 14.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L7/L12 Chain: Z
Molecule details ›
Chain: Z
Length: 121 amino acids
Theoretical weight: 12.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L27 Chain: b
Molecule details ›
Chain: b
Length: 85 amino acids
Theoretical weight: 9.15 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7L8 (Residues: 1-85; Coverage: 100%)
Gene names: JW3152, b3185, rpmA
Sequence domains: Ribosomal L27 protein
50S ribosomal protein L28 Chain: c
Molecule details ›
Chain: c
Length: 78 amino acids
Theoretical weight: 9.03 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L29 Chain: e
Molecule details ›
Chain: e
Length: 63 amino acids
Theoretical weight: 7.29 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L30 Chain: f
Molecule details ›
Chain: f
Length: 59 amino acids
Theoretical weight: 6.55 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L31 Chain: g
Molecule details ›
Chain: g
Length: 70 amino acids
Theoretical weight: 7.89 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L2 Chain: h
Molecule details ›
Chain: h
Length: 273 amino acids
Theoretical weight: 29.92 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P60422 (Residues: 1-273; Coverage: 100%)
Gene names: JW3279, b3317, rplB
Sequence domains:
50S ribosomal protein L32 Chain: i
Molecule details ›
Chain: i
Length: 57 amino acids
Theoretical weight: 6.46 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L3 Chain: j
Molecule details ›
Chain: j
Length: 209 amino acids
Theoretical weight: 22.28 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P60438 (Residues: 1-209; Coverage: 100%)
Gene names: JW3282, b3320, rplC
Sequence domains: Ribosomal protein L3
50S ribosomal protein L33 Chain: k
Molecule details ›
Chain: k
Length: 55 amino acids
Theoretical weight: 6.39 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L4 Chain: l
Molecule details ›
Chain: l
Length: 201 amino acids
Theoretical weight: 22.12 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L34 Chain: m
Molecule details ›
Chain: m
Length: 46 amino acids
Theoretical weight: 5.4 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: B7MGC4 (Residues: 1-46; Coverage: 100%)
Gene names: ECS88_4126, rpmH
Sequence domains: Ribosomal protein L34
50S ribosomal protein L5 Chain: n
Molecule details ›
Chain: n
Length: 179 amino acids
Theoretical weight: 20.33 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L35 Chain: o
Molecule details ›
Chain: o
Length: 65 amino acids
Theoretical weight: 7.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L6 Chain: p
Molecule details ›
Chain: p
Length: 177 amino acids
Theoretical weight: 18.93 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L36 Chain: q
Molecule details ›
Chain: q
Length: 38 amino acids
Theoretical weight: 4.38 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0E2L017 (Residues: 1-38; Coverage: 100%)
Gene names: G925_03522, rpmJ
Sequence domains: Ribosomal protein L36
50S ribosomal protein L9 Chain: r
Molecule details ›
Chain: r
Length: 149 amino acids
Theoretical weight: 15.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L13 Chain: s
Molecule details ›
Chain: s
Length: 142 amino acids
Theoretical weight: 16.05 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L14 Chain: t
Molecule details ›
Chain: t
Length: 123 amino acids
Theoretical weight: 13.57 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L16 Chain: v
Molecule details ›
Chain: v
Length: 136 amino acids
Theoretical weight: 15.31 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0ADY7 (Residues: 1-136; Coverage: 100%)
Gene names: JW3275, b3313, rplP
Sequence domains: Ribosomal protein L16p/L10e
50S ribosomal protein L17 Chain: w
Molecule details ›
Chain: w
Length: 127 amino acids
Theoretical weight: 14.39 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A1X3LC97 (Residues: 1-127; Coverage: 100%)
Gene names: EAXG_02993, rplQ
Sequence domains: Ribosomal protein L17
50S ribosomal protein L18 Chain: x
Molecule details ›
Chain: x
Length: 117 amino acids
Theoretical weight: 12.79 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: A1AGJ3 (Residues: 1-117; Coverage: 100%)
Gene names: APECO1_3145, Ecok1_32890, rplR
Sequence domains: Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
50S ribosomal protein L19 Chain: y
Molecule details ›
Chain: y
Length: 115 amino acids
Theoretical weight: 13.16 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
50S ribosomal protein L20 Chain: z
Molecule details ›
Chain: z
Length: 118 amino acids
Theoretical weight: 13.53 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: B7MAS6 (Residues: 1-118; Coverage: 100%)
Gene names: ECS88_1766, rplT
Sequence domains: Ribosomal protein L20
NT DNA Chain: 5
Molecule details ›
Chain: 5
Length: 36 nucleotides
Theoretical weight: 11.04 KDa
T DNA Chain: 6
Molecule details ›
Chain: 6
Length: 36 nucleotides
Theoretical weight: 10.96 KDa
mRNA with 24 nt long spacer Chain: 7
Molecule details ›
Chain: 7
Length: 41 nucleotides
Theoretical weight: 12.91 KDa
E-site and P-site tRNA (fMet) Chains: A, B
Molecule details ›
Chains: A, B
Length: 76 nucleotides
Theoretical weight: 24.5 KDa
Sequence domains: tRNA
16S ribosomal RNA Chain: D
Molecule details ›
Chain: D
Length: 1542 nucleotides
Theoretical weight: 499.69 KDa
Sequence domains: Bacterial small subunit ribosomal RNA
23S ribosomal RNA Chain: a
Molecule details ›
Chain: a
Length: 2904 nucleotides
Theoretical weight: 941.64 KDa
Sequence domains: Bacterial large subunit ribosomal RNA
5S ribosomal RNA Chain: d
Molecule details ›
Chain: d
Length: 120 nucleotides
Theoretical weight: 38.79 KDa
Sequence domains: 5S ribosomal RNA

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.1Å
Relevant EMDB volumes: EMD-22087
Expression system: Escherichia coli