6VYS

Escherichia coli transcription-translation complex A1 (TTC-A1) containing a 21 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 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:  
    6VU3, 6VYQ, 6VYR, 6VYS, 6VYT, 6VYU, 6VYW, 6VYX, 6VYY, 6VYZ, 6VZ2, 6VZ3, 6VZ5, 6VZ7, 6VZJ, 6X6T, 6X7F, 6X7K, 6X9Q, 6XDQ, 6XDR, 6XGF, 6XII, 6XIJ

  • 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
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L21A [auth 0]103Escherichia coliMutation(s): 0 
Gene Names: rplU
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L22B [auth 1]110Escherichia coliMutation(s): 0 
Gene Names: rplV
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L23C [auth 2]100Escherichia coliMutation(s): 0 
Gene Names: rplW
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L24D [auth 3]104Escherichia coliMutation(s): 0 
Gene Names: rplX
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L25E [auth 4]94Escherichia coliMutation(s): 0 
Gene Names: rplY
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Find proteins for D7XH79 (Escherichia coli MS 84-1)
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L10I [auth 9]165Escherichia coliMutation(s): 0 
Gene Names: rplJ
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit betaK [auth AA]1,342Escherichia coliMutation(s): 0 
Gene Names: rpoB, Z5560, ECs4910
EC: 2.7.7.6
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription termination/antitermination protein NusGL [auth AB]181Escherichia coliMutation(s): 0 
Gene Names: nusG
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit alphaM [auth AC],
N [auth AD]		329Escherichia coliMutation(s): 0 
Gene Names: rpoA
EC: 2.7.7.6
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Entity ID: 14
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DNA-directed RNA polymerase subunitO [auth AE]1,358Escherichia coliMutation(s): 0 
Gene Names: rpoC, ELV15_17980
EC: 2.7.7.6
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Entity ID: 15
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30S ribosomal protein S18Q [auth C]75Escherichia coliMutation(s): 0 
Gene Names: rpsR
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Entity ID: 17
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30S ribosomal protein S20S [auth E]87Escherichia coliMutation(s): 0 
Gene Names: rpsT
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Entity ID: 18
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30S ribosomal protein S21T [auth F]71Escherichia coliMutation(s): 0 
Gene Names: rpsU
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Entity ID: 19
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30S ribosomal protein S2U [auth G]241Escherichia coliMutation(s): 0 
Gene Names: rpsB
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30S ribosomal protein S1V [auth H]557Escherichia coliMutation(s): 0 
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30S ribosomal protein S3W [auth I]233Escherichia coliMutation(s): 0 
Gene Names: rpsC
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30S ribosomal protein S4X [auth J]206Escherichia coliMutation(s): 0 
Gene Names: rpsD
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30S ribosomal protein S5Y [auth K]167Escherichia coliMutation(s): 0 
Gene Names: rpsE
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Entity ID: 24
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30S ribosomal protein S6Z [auth L]135Escherichia coliMutation(s): 0 
Gene Names: rpsF, b4200, JW4158
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Entity ID: 25
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30S ribosomal protein S7AA [auth M]179Escherichia coliMutation(s): 0 
Gene Names: rpsG, GHR40_06850
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Entity ID: 26
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30S ribosomal protein S8BA [auth N]130Escherichia coliMutation(s): 0 
Gene Names: rpsH
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Entity ID: 27
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30S ribosomal protein S9CA [auth O]130Escherichia coliMutation(s): 0 
Gene Names: rpsI
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Entity ID: 28
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30S ribosomal protein S10DA [auth P]103Escherichia coliMutation(s): 0 
Gene Names: rpsJ
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Entity ID: 29
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30S ribosomal protein S11EA [auth Q]129Escherichia coliMutation(s): 0 
Gene Names: rpsK
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Entity ID: 30
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30S ribosomal protein S12FA [auth R]124Escherichia coliMutation(s): 0 
Gene Names: rpsL
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Entity ID: 31
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30S ribosomal protein S14GA [auth S]101Escherichia coliMutation(s): 0 
Gene Names: rpsN
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Entity ID: 32
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30S ribosomal protein S15HA [auth T]89Escherichia coliMutation(s): 0 
Gene Names: rpsO
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Entity ID: 33
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30S ribosomal protein S16IA [auth U]82Escherichia coliMutation(s): 0 
Gene Names: rpsP
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Entity ID: 34
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30S ribosomal protein S17JA [auth V]84Escherichia coliMutation(s): 0 
Gene Names: rpsQ
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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S19KA [auth W]92Escherichia coliMutation(s): 0 
Gene Names: rpsS
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Entity ID: 36
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30S ribosomal protein S13LA [auth X]118Escherichia coliMutation(s): 0 
Gene Names: rpsM
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Entity ID: 37
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50S ribosomal protein L11MA [auth Y]142Escherichia coliMutation(s): 0 
Gene Names: rplK
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50S ribosomal protein L7/L12NA [auth Z]121Escherichia coliMutation(s): 0 
Gene Names: rplL
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Entity ID: 40
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50S ribosomal protein L27PA [auth b]85Escherichia coliMutation(s): 0 
Gene Names: rpmA, b3185, JW3152
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50S ribosomal protein L28QA [auth c]78Escherichia coliMutation(s): 0 
Gene Names: rpmB
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50S ribosomal protein L29SA [auth e]63Escherichia coliMutation(s): 0 
Gene Names: rpmC
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50S ribosomal protein L30TA [auth f]59Escherichia coliMutation(s): 0 
Gene Names: rpmD
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50S ribosomal protein L31UA [auth g]70Escherichia coliMutation(s): 0 
Gene Names: rpmE
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Entity ID: 46
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50S ribosomal protein L2VA [auth h]273Escherichia coliMutation(s): 0 
Gene Names: rplB, b3317, JW3279
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Entity ID: 47
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50S ribosomal protein L32WA [auth i]57Escherichia coliMutation(s): 0 
Gene Names: rpmF
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Entity ID: 48
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50S ribosomal protein L3XA [auth j]209Escherichia coliMutation(s): 0 
Gene Names: rplC, b3320, JW3282
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Entity ID: 49
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50S ribosomal protein L33YA [auth k]55Escherichia coliMutation(s): 0 
Gene Names: rpmG
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50S ribosomal protein L4ZA [auth l]201Escherichia coliMutation(s): 0 
Gene Names: rplD
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50S ribosomal protein L34AB [auth m]46Escherichia coliMutation(s): 0 
Gene Names: rpmH
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50S ribosomal protein L5BB [auth n]179Escherichia coliMutation(s): 0 
Gene Names: rplE
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50S ribosomal protein L35CB [auth o]65Escherichia coliMutation(s): 0 
Gene Names: rpmI
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50S ribosomal protein L6DB [auth p]177Escherichia coliMutation(s): 0 
Gene Names: rplF
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Entity ID: 55
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50S ribosomal protein L36EB [auth q]38Escherichia coliMutation(s): 0 
Gene Names: rpmJ
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Find proteins for A0A0E2L017 (Escherichia coli (strain UMEA 3162-1))
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Entity ID: 56
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50S ribosomal protein L9FB [auth r]149Escherichia coliMutation(s): 0 
Gene Names: rplI
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Entity ID: 57
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50S ribosomal protein L13GB [auth s]142Escherichia coliMutation(s): 0 
Gene Names: rplM
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Entity ID: 58
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50S ribosomal protein L14HB [auth t]123Escherichia coliMutation(s): 0 
Gene Names: rplN
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Entity ID: 59
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50S ribosomal protein L15IB [auth u]144Escherichia coliMutation(s): 0 
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Entity ID: 60
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50S ribosomal protein L16JB [auth v]136Escherichia coliMutation(s): 0 
Gene Names: rplP, b3313, JW3275
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Find proteins for P0ADY7 (Escherichia coli (strain K12))
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50S ribosomal protein L17KB [auth w]127Escherichia coliMutation(s): 0 
Gene Names: rplQ, ECCG_03701
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Entity ID: 62
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50S ribosomal protein L18LB [auth x]117Escherichia coliMutation(s): 0 
Gene Names: rplR
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Entity ID: 63
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19MB [auth y]115Escherichia coliMutation(s): 0 
Gene Names: rplS
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Entity ID: 64
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20NB [auth z]118Escherichia coliMutation(s): 0 
Gene Names: rplT, A13W_00675
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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 21 nt long spacerH [auth 7]37synthetic construct
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Entity ID: 10
MoleculeChainsLengthOrganismImage
E-site and P-site tRNA (fMet)J [auth A],
P [auth B]		76Escherichia coli
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Entity ID: 16
MoleculeChainsLengthOrganismImage
16S rRNAR [auth D]1,542Escherichia coli
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Entity ID: 39
MoleculeChainsLengthOrganismImage
23S rRNAOA [auth a]2,904Escherichia coli
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Entity ID: 42
MoleculeChainsLengthOrganismImage
5S rRNARA [auth d]120Escherichia coli
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Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN
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PB [auth AE],
QB [auth AE]		ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
MG
Query on MG
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OB [auth AE]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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View more in-depth experimental data
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