6VYT

Escherichia coli transcription-translation complex A2 (TTC-A2) containing a 15 nt long mRNA spacer, NusG, and fMet-tRNAs at P-site and E-site


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 14.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 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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Entity ID: 2
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50S ribosomal protein L22B [auth 1]110Escherichia coliMutation(s): 0 
Gene Names: rplV
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Entity ID: 3
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50S ribosomal protein L23C [auth 2]100Escherichia coliMutation(s): 0 
Gene Names: rplW
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Entity ID: 4
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50S ribosomal protein L24D [auth 3]104Escherichia coliMutation(s): 0 
Gene Names: rplX
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Entity ID: 5
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50S ribosomal protein L25E [auth 4]94Escherichia coliMutation(s): 0 
Gene Names: rplY
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Entity ID: 10
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DNA-directed RNA polymerase subunit betaJ [auth AA]1342Escherichia coliMutation(s): 0 
Gene Names: rpoBZ5560ECs4910
EC: 2.7.7.6
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription termination/antitermination protein NusGK [auth AB]181Escherichia coliMutation(s): 0 
Gene Names: nusG
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Entity ID: 12
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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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Entity ID: 13
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DNA-directed RNA polymerase subunit beta'N [auth AE]1407Escherichia coliMutation(s): 1 
Gene Names: rpoCBvCmsKKP036_03580G5696_22040
EC: 2.7.7.6
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Entity ID: 14
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30S ribosomal protein S18P [auth C]66Escherichia coliMutation(s): 0 
Gene Names: rpsRFAZ83_21620
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Entity ID: 16
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30S ribosomal protein S20R [auth E]87Escherichia coliMutation(s): 0 
Gene Names: rpsT
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Entity ID: 17
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30S ribosomal protein S21S [auth F]71Escherichia coliMutation(s): 0 
Gene Names: rpsU
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Entity ID: 18
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30S ribosomal protein S2T [auth G]241Escherichia coliMutation(s): 0 
Gene Names: rpsB
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Entity ID: 19
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30S ribosomal protein S1U [auth H]557Escherichia coliMutation(s): 0 
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Entity ID: 20
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30S ribosomal protein S3V [auth I]233Escherichia coliMutation(s): 0 
Gene Names: rpsC
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Entity ID: 21
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30S ribosomal protein S4W [auth J]206Escherichia coliMutation(s): 0 
Gene Names: rpsD
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Entity ID: 22
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30S ribosomal protein S5X [auth K]167Escherichia coliMutation(s): 0 
Gene Names: rpsE
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Entity ID: 23
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30S ribosomal protein S6Y [auth L]135Escherichia coliMutation(s): 0 
Gene Names: rpsFb4200JW4158
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Entity ID: 24
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30S ribosomal protein S7Z [auth M]179Escherichia coliMutation(s): 0 
Gene Names: rpsGGHR40_06850NCTC12650_00665
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Entity ID: 25
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30S ribosomal protein S8AA [auth N]130Escherichia coliMutation(s): 0 
Gene Names: rpsH
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Entity ID: 26
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30S ribosomal protein S9BA [auth O]130Escherichia coliMutation(s): 0 
Gene Names: rpsI
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Entity ID: 27
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30S ribosomal protein S10CA [auth P]103Escherichia coliMutation(s): 0 
Gene Names: rpsJ
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Entity ID: 28
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30S ribosomal protein S11DA [auth Q]129Escherichia coliMutation(s): 0 
Gene Names: rpsK
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30S ribosomal protein S12EA [auth R]124Escherichia coliMutation(s): 0 
Gene Names: rpsL
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30S ribosomal protein S14FA [auth S]101Escherichia coliMutation(s): 0 
Gene Names: rpsN
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30S ribosomal protein S15GA [auth T]89Escherichia coliMutation(s): 0 
Gene Names: rpsO
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Entity ID: 32
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30S ribosomal protein S16HA [auth U]82Escherichia coliMutation(s): 0 
Gene Names: rpsP
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Entity ID: 33
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30S ribosomal protein S17IA [auth V]84Escherichia coliMutation(s): 0 
Gene Names: rpsQ
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Entity ID: 34
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30S ribosomal protein S19JA [auth W]92Escherichia coliMutation(s): 0 
Gene Names: rpsS
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Entity ID: 35
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30S ribosomal protein S13KA [auth X]118Escherichia coliMutation(s): 0 
Gene Names: rpsM
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Entity ID: 38
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50S ribosomal protein L27NA [auth b]85Escherichia coliMutation(s): 0 
Gene Names: rpmAb3185JW3152
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Entity ID: 39
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50S ribosomal protein L28OA [auth c]78Escherichia coliMutation(s): 0 
Gene Names: rpmB
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Entity ID: 41
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50S ribosomal protein L29QA [auth e]63Escherichia coliMutation(s): 0 
Gene Names: rpmC
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Entity ID: 42
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50S ribosomal protein L30RA [auth f]59Escherichia coliMutation(s): 0 
Gene Names: rpmD
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Entity ID: 43
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50S ribosomal protein L31SA [auth g]70Escherichia coliMutation(s): 0 
Gene Names: rpmE
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Entity ID: 44
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50S ribosomal protein L2TA [auth h]273Escherichia coliMutation(s): 0 
Gene Names: rplBb3317JW3279
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50S ribosomal protein L32UA [auth i]57Escherichia coliMutation(s): 0 
Gene Names: rpmF
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Entity ID: 46
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50S ribosomal protein L3VA [auth j]209Escherichia coliMutation(s): 0 
Gene Names: rplCb3320JW3282
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Entity ID: 47
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50S ribosomal protein L33WA [auth k]55Escherichia coliMutation(s): 0 
Gene Names: rpmG
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Entity ID: 48
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50S ribosomal protein L4XA [auth l]201Escherichia coliMutation(s): 0 
Gene Names: rplD
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Entity ID: 49
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50S ribosomal protein L34YA [auth m]46Escherichia coliMutation(s): 0 
Gene Names: rpmH
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50S ribosomal protein L5ZA [auth n]179Escherichia coliMutation(s): 0 
Gene Names: rplE
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50S ribosomal protein L35AB [auth o]65Escherichia coliMutation(s): 0 
Gene Names: rpmI
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Entity ID: 52
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50S ribosomal protein L6BB [auth p]177Escherichia coliMutation(s): 0 
Gene Names: rplF
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Entity ID: 53
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50S ribosomal protein L36CB [auth q]38Escherichia coliMutation(s): 0 
Gene Names: rpmJ
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50S ribosomal protein L9DB [auth r]149Escherichia coliMutation(s): 0 
Gene Names: rplI
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Entity ID: 55
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50S ribosomal protein L13EB [auth s]142Escherichia coliMutation(s): 0 
Gene Names: rplM
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Entity ID: 56
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50S ribosomal protein L14FB [auth t]123Escherichia coliMutation(s): 0 
Gene Names: rplN
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50S ribosomal protein L15GB [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: 58
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L16HB [auth v]136Escherichia coliMutation(s): 0 
Gene Names: rplPb3313JW3275
UniProt
Find proteins for P0ADY7 (Escherichia coli (strain K12))
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Entity ID: 59
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17IB [auth w]127Escherichia coliMutation(s): 0 
Gene Names: rplQECCG_03701
UniProt
Find proteins for D6I1Y5 (Escherichia coli B088)
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Entity ID: 60
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L18JB [auth x]117Escherichia coliMutation(s): 0 
Gene Names: rplR
UniProt
Find proteins for D7Z9H1 (Escherichia coli MS 69-1)
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Entity ID: 61
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19KB [auth y]115Escherichia coliMutation(s): 0 
Gene Names: rplS
UniProt
Find proteins for D7ZKU3 (Escherichia coli MS 69-1)
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Entity ID: 62
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20LB [auth z]118Escherichia coliMutation(s): 0 
Gene Names: rplTA13W_00675
UniProt
Find proteins for L3CCT0 (Escherichia coli KTE193)
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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 a 15 nt long spacerH [auth 7]32synthetic construct
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Entity ID: 9
MoleculeChainsLengthOrganismImage
E-site and P-site tRNA (fMet)I [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: 36
    MoleculeChainsLengthOrganismImage
    mRNA in the ribosomal RNA entrance poreLA [auth Y]3synthetic construct
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    Entity ID: 37
    MoleculeChainsLengthOrganismImage
    23S rRNAMA [auth a]2904Escherichia coli
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    Entity ID: 40
    MoleculeChainsLengthOrganismImage
    5S rRNAPA [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 
    NB [auth AA], OB [auth AA]ZINC ION
    Zn
    PTFCDOFLOPIGGS-UHFFFAOYSA-N
     Ligand Interaction
    MG
    Query on MG

    Download Ideal Coordinates CCD File 
    MB [auth 7]MAGNESIUM ION
    Mg
    JLVVSXFLKOJNIY-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: ELECTRON MICROSCOPY
    • Resolution: 14.0 Å
    • Aggregation State: PARTICLE 
    • Reconstruction Method: SINGLE PARTICLE 

    Structure Validation

    View Full Validation Report




    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: 2020-09-16
      Changes: Database references
    • Version 1.2: 2020-09-23
      Changes: Database references