6VZJ

Escherichia coli transcription-translation complex A1 (TTC-A1) containing mRNA with a 15 nt long spacer, fMet-tRNAs at E-site and P-site, and lacking transcription factor NusG


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis of transcription-translation coupling.

Wang, C.Molodtsov, V.Firlar, E.Kaelber, J.T.Blaha, G.Su, M.Ebright, R.H.

(2020) Science 369: 1359-1365

  • DOI: 10.1126/science.abb5317
  • Primary Citation of Related Structures:  
    6X7F, 6X7K, 6X6T, 6X9Q, 6XDR, 6XDQ, 6XGF, 6XIJ, 6XII, 6VU3, 6VYR, 6VZ3, 6VYQ, 6VZ2, 6VYT, 6VZ5, 6VYS, 6VZ7, 6VYU, 6VYX, 6VYW, 6VZJ, 6VYZ, 6VYY

  • PubMed Abstract: 
  • In bacteria, transcription and translation are coupled processes in which the movement of RNA polymerase (RNAP)-synthesizing messenger RNA (mRNA) is coordinated with the movement of the first ribosome-translating mRNA. Coupling is modulated by the transcription factors NusG (which is thought to bridge RNAP and the ribosome) and NusA ...

    In bacteria, transcription and translation are coupled processes in which the movement of RNA polymerase (RNAP)-synthesizing messenger RNA (mRNA) is coordinated with the movement of the first ribosome-translating mRNA. Coupling is modulated by the transcription factors NusG (which is thought to bridge RNAP and the ribosome) and NusA. Here, we report cryo-electron microscopy structures of Escherichia coli transcription-translation complexes (TTCs) containing different-length mRNA spacers between RNAP and the ribosome active-center P site. Structures of TTCs containing short spacers show a state incompatible with NusG bridging and NusA binding (TTC-A, previously termed "expressome"). Structures of TTCs containing longer spacers reveal a new state compatible with NusG bridging and NusA binding (TTC-B) and reveal how NusG bridges and NusA binds. We propose that TTC-B mediates NusG- and NusA-dependent transcription-translation coupling.


    Organizational Affiliation

    Waksman Institute and Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, NJ 08854, USA. minsu@umich.edu ebright@waksman.rutgers.edu.



Macromolecules

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Entity ID: 1
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50S ribosomal protein L21A [auth 0]103Escherichia coliMutation(s): 0 
Gene Names: rplU
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50S ribosomal protein L22B [auth 1]110Escherichia coliMutation(s): 0 
Gene Names: rplV
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50S ribosomal protein L23C [auth 2]100Escherichia coliMutation(s): 0 
Gene Names: rplW
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50S ribosomal protein L24D [auth 3]104Escherichia coliMutation(s): 0 
Gene Names: rplX
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50S ribosomal protein L25E [auth 4]94Escherichia coliMutation(s): 0 
Gene Names: rplY
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50S ribosomal protein L10I [auth 9]165Escherichia coliMutation(s): 0 
Gene Names: rplJ
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Entity ID: 11
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DNA-directed RNA polymerase subunit betaK [auth AA]1342Escherichia coliMutation(s): 0 
Gene Names: rpoB
EC: 2.7.7.6
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DNA-directed RNA polymerase subunit alphaL [auth AC], M [auth AD]329Escherichia coliMutation(s): 0 
Gene Names: rpoA
EC: 2.7.7.6
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DNA-directed RNA polymerase subunit beta'N [auth AE]1407Escherichia coliMutation(s): 0 
Gene Names: rpoCBvCmsKKP036_03580G5696_22040
EC: 2.7.7.6
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30S ribosomal protein S18P [auth C]75Escherichia coliMutation(s): 0 
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30S ribosomal protein S20R [auth E]87Escherichia coliMutation(s): 0 
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30S ribosomal protein S21S [auth F]71Escherichia coliMutation(s): 0 
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30S ribosomal protein S2T [auth G]241Escherichia coliMutation(s): 0 
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30S ribosomal protein S1U [auth H]557Escherichia coliMutation(s): 0 
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30S ribosomal protein S3V [auth I]233Escherichia coliMutation(s): 0 
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30S ribosomal protein S4W [auth J]205Escherichia coliMutation(s): 0 
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30S ribosomal protein S5X [auth K]167Escherichia coliMutation(s): 0 
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30S ribosomal protein S6Y [auth L]135Escherichia coliMutation(s): 0 
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30S ribosomal protein S7Z [auth M]151Escherichia coliMutation(s): 0 
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30S ribosomal protein S8AA [auth N]129Escherichia coliMutation(s): 0 
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30S ribosomal protein S9BA [auth O]127Escherichia coliMutation(s): 0 
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30S ribosomal protein S10CA [auth P]99Escherichia coliMutation(s): 0 
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30S ribosomal protein S11DA [auth Q]117Escherichia coliMutation(s): 0 
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30S ribosomal protein S12EA [auth R]123Escherichia coliMutation(s): 0 
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30S ribosomal protein S14FA [auth S]101Escherichia coliMutation(s): 0 
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30S ribosomal protein S15GA [auth T]89Escherichia coliMutation(s): 0 
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30S ribosomal protein S16HA [auth U]82Escherichia coliMutation(s): 0 
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30S ribosomal protein S17IA [auth V]84Escherichia coliMutation(s): 0 
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30S ribosomal protein S19JA [auth W]83Escherichia coliMutation(s): 0 
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30S ribosomal protein S13KA [auth X]116Escherichia coliMutation(s): 0 
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50S ribosomal protein L11LA [auth Y]141Escherichia coliMutation(s): 0 
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50S ribosomal protein L7/L12MA [auth Z]121Escherichia coliMutation(s): 0 
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50S ribosomal protein L27OA [auth b]76Escherichia coliMutation(s): 0 
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50S ribosomal protein L28PA [auth c]78Escherichia coliMutation(s): 0 
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50S ribosomal protein L29RA [auth e]62Escherichia coliMutation(s): 0 
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50S ribosomal protein L30SA [auth f]58Escherichia coliMutation(s): 0 
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50S ribosomal protein L31TA [auth g]66Escherichia coliMutation(s): 0 
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50S ribosomal protein L2UA [auth h]271Escherichia coliMutation(s): 0 
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50S ribosomal protein L32VA [auth i]56Escherichia coliMutation(s): 0 
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50S ribosomal protein L3WA [auth j]209Escherichia coliMutation(s): 0 
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50S ribosomal protein L33XA [auth k]55Escherichia coliMutation(s): 0 
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50S ribosomal protein L4YA [auth l]201Escherichia coliMutation(s): 0 
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50S ribosomal protein L34ZA [auth m]46Escherichia coliMutation(s): 0 
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50S ribosomal protein L5AB [auth n]177Escherichia coliMutation(s): 0 
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50S ribosomal protein L35BB [auth o]64Escherichia coliMutation(s): 0 
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50S ribosomal protein L6CB [auth p]175Escherichia coliMutation(s): 0 
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50S ribosomal protein L36DB [auth q]38Escherichia coliMutation(s): 0 
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50S ribosomal protein L9EB [auth r]149Escherichia coliMutation(s): 0 
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50S ribosomal protein L13FB [auth s]142Escherichia coliMutation(s): 0 
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50S ribosomal protein L14GB [auth t]123Escherichia coliMutation(s): 0 
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50S ribosomal protein L15HB [auth u]144Escherichia coliMutation(s): 0 
Gene Names: 
rplOA8C65_19395A9R57_24660ACU57_21045AM464_09135AUQ13_22145BANRA_01932BANRA_03684BHS87_18545BJJ90_02210BMA87_18510BON75_18850BON98_13310BUE81_25610BvCms2454_01416BvCmsHHP001_00334BvCmsHHP019_04131BvCmsHHP056_02703BvCmsKSP026_02554BvCmsSINP011_02480BW690_10710BZL31_22885C5F72_02595C5F73_02860C5N07_23575C9E25_20065C9Z39_20710CA593_09735CG692_20270CI693_13520CI694_01990CIG45_22410D0X26_24495D2185_22985D3821_17755D3O91_20305D3Y67_24390D4638_19455D4718_17880D9C99_17930D9D20_21995D9D44_22490D9G29_15635D9G69_20945D9H68_17710D9J52_19090D9Z28_15390DAH37_14685DBQ99_03415DJ503_19770DL326_22310DNC98_19095DT034_22410DTL43_21000E2119_19640E2134_21880E2135_06185E4A44_21305E4K51_21490E4K55_21420E4K60_18985E4K61_20025E5P22_10480E5P28_20875EA213_19860EAI42_04990EAI52_16365EC1094V2_354EC3234A_55c00230EC3426_04459ECTO6_00449ED307_17010EEP23_17135EG808_17075EI021_21030EI028_20740EI032_18995EI041_20035EIZ93_12470EL75_0396EL79_0415EL80_0407ELT20_19170EPT01_19765ERS085365_03907ERS085416_03881ERS139211_03685ERS150873_04051EXX71_21335EYD11_02080F1E19_19655F9040_18095FRV13_20015FV293_22465FWK02_06270G5632_17770G5688_20025GHR40_07050GKF39_20550GKF74_18130GKF86_20070GKF89_18470GP671_20580GP689_20785GP954_00945GP979_02005GQE33_22230GQE34_14255GQE64_20420GQM17_19915GRW05_09060GRW27_21285GRW42_19350GRW57_03540GRW80_20585GRW81_21150NCTC10963_00456NCTC11022_03475NCTC11126_02772NCTC12650_00710NCTC13216_01351NCTC9045_00567NCTC9062_02686NCTC9117_00757NCTC9706_02738PGD_00585RK56_021420SAMEA3472047_03862SAMEA3472080_04748SAMEA3484427_04887SAMEA3484429_04875SAMEA3752559_00346SAMEA3753300_02227

UniProt
Find proteins for A0A037Y8L6 (Escherichia coli)
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Entity ID: 59
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L16IB [auth v]136Escherichia coliMutation(s): 0 
Gene Names: rplP
UniProt
Find proteins for P0ADY7 (Escherichia coli (strain K12))
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Entity ID: 60
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17JB [auth w]119Escherichia coliMutation(s): 0 
Gene Names: rplQC6985_20075NCTC10767_01524NCTC9081_00927
UniProt
Find proteins for A0A2T1LEK9 (Escherichia coli)
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Entity ID: 61
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L18KB [auth x]116Escherichia coliMutation(s): 0 
Gene Names: rplR
UniProt
Find proteins for H4JDL8 (Escherichia coli DEC1D)
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Entity ID: 62
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19LB [auth y]114Escherichia coliMutation(s): 0 
Gene Names: rplS
UniProt
Find proteins for A0A069XKC0 (Escherichia coli 3-373-03_S4_C2)
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Entity ID: 63
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20MB [auth z]117Escherichia coliMutation(s): 0 
Gene Names: rplT
UniProt
Find proteins for V6FS92 (Escherichia coli 99.0741)
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Entity ID: 6
MoleculeChainsLengthOrganismImage
NT DNAF [auth 5]36synthetic construct
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Entity ID: 7
MoleculeChainsLengthOrganismImage
T DNAG [auth 6]36synthetic construct
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Entity ID: 8
MoleculeChainsLengthOrganismImage
mRNA with 27 nt long spacerH [auth 7]32synthetic construct
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Entity ID: 10
MoleculeChainsLengthOrganismImage
E-site and P-site tRNA (fMet)J [auth A], O [auth B]76Escherichia coli
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Entity ID: 15
MoleculeChainsLengthOrganismImage
16S rRNAQ [auth D]1542Escherichia coli
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Entity ID: 38
MoleculeChainsLengthOrganismImage
23S rRNANA [auth a]2904Escherichia coli
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Entity ID: 41
MoleculeChainsLengthOrganismImage
5S rRNAQA [auth d]120Escherichia coli
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Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
OB [auth AE], PB [auth AE]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

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NB [auth AE]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-02
    Type: Initial release
  • Version 1.1: 2020-09-23
    Changes: Database references