6XII

Escherichia coli transcription-translation complex B (TTC-B) containing an 24 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.00 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:  
    6VYZ, 6VYY, 6VU3, 6VYR, 6VZ3, 6VYQ, 6VZ2, 6VYT, 6VZ5, 6VYS

  • 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 transc ...

    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 L21 0103Escherichia coliMutation(s): 0 
Gene Names: rplU
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Entity ID: 2
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50S ribosomal protein L22 1110Escherichia coliMutation(s): 0 
Gene Names: rplV
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Entity ID: 3
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50S ribosomal protein L23 2100Escherichia coliMutation(s): 0 
Gene Names: rplW
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L24 3104Escherichia coliMutation(s): 0 
Gene Names: rplX
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L25 494Escherichia coliMutation(s): 0 
Gene Names: rplY
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L10 9165Escherichia coliMutation(s): 0 
Gene Names: rplJ
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta AA1342Escherichia coliMutation(s): 0 
Gene Names: rpoB
EC: 2.7.7.6
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription termination/antitermination protein NusG AB181Escherichia coliMutation(s): 0 
Gene Names: nusG
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Entity ID: 13
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DNA-directed RNA polymerase subunit alpha AC, AD329Escherichia coliMutation(s): 0 
Gene Names: rpoA
EC: 2.7.7.6
Find proteins for A0A073G207 (Escherichia coli 2-427-07_S4_C3)
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Entity ID: 14
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DNA-directed RNA polymerase subunit beta' AE1407Escherichia coliMutation(s): 0 
Gene Names: rpoC, BvCmsKKP036_03580, G5696_22040
EC: 2.7.7.6
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Entity ID: 15
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DNA-directed RNA polymerase subunit omega AF91Escherichia coliMutation(s): 0 
Gene Names: rpoZ
EC: 2.7.7.6
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Entity ID: 16
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30S ribosomal protein S18 C75Escherichia coliMutation(s): 0 
Gene Names: rpsR
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Entity ID: 18
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30S ribosomal protein S20 E87Escherichia coliMutation(s): 0 
Gene Names: rpsT
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Entity ID: 19
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30S ribosomal protein S21 F71Escherichia coliMutation(s): 0 
Gene Names: rpsU
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Entity ID: 20
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30S ribosomal protein S2 G241Escherichia coliMutation(s): 0 
Gene Names: rpsB
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Entity ID: 21
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30S ribosomal protein S1 H557Escherichia coliMutation(s): 0 
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Entity ID: 22
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30S ribosomal protein S3 I233Escherichia coliMutation(s): 0 
Gene Names: rpsC
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30S ribosomal protein S4 J206Escherichia coliMutation(s): 0 
Gene Names: rpsD
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Entity ID: 24
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30S ribosomal protein S5 K167Escherichia coliMutation(s): 0 
Gene Names: rpsE
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Entity ID: 25
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30S ribosomal protein S6 L135Escherichia coliMutation(s): 0 
Gene Names: rpsF
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Entity ID: 26
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30S ribosomal protein S7 M179Escherichia coliMutation(s): 0 
Gene Names: rpsG, GHR40_06850, NCTC12650_00665
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30S ribosomal protein S8 N130Escherichia coliMutation(s): 0 
Gene Names: rpsH
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30S ribosomal protein S9 O130Escherichia coliMutation(s): 0 
Gene Names: rpsI
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Entity ID: 29
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30S ribosomal protein S10 P103Escherichia coliMutation(s): 0 
Gene Names: rpsJ
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Entity ID: 30
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30S ribosomal protein S11 Q129Escherichia coliMutation(s): 0 
Gene Names: rpsK
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Entity ID: 31
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30S ribosomal protein S12 R124Escherichia coliMutation(s): 0 
Gene Names: rpsL
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Entity ID: 32
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30S ribosomal protein S14 S101Escherichia coliMutation(s): 0 
Gene Names: rpsN
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Entity ID: 33
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30S ribosomal protein S15 T89Escherichia coliMutation(s): 0 
Gene Names: rpsO
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Entity ID: 34
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30S ribosomal protein S16 U82Escherichia coliMutation(s): 0 
Gene Names: rpsP
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30S ribosomal protein S17 V84Escherichia coliMutation(s): 0 
Gene Names: rpsQ
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30S ribosomal protein S19 W92Escherichia coliMutation(s): 0 
Gene Names: rpsS
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Entity ID: 37
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30S ribosomal protein S13 X118Escherichia coliMutation(s): 0 
Gene Names: rpsM
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Entity ID: 38
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50S ribosomal protein L11 Y142Escherichia coliMutation(s): 0 
Gene Names: rplK
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50S ribosomal protein L7/L12 Z121Escherichia coliMutation(s): 0 
Gene Names: rplL
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50S ribosomal protein L27 b85Escherichia coliMutation(s): 0 
Gene Names: rpmA
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50S ribosomal protein L28 c78Escherichia coliMutation(s): 0 
Gene Names: rpmB
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50S ribosomal protein L29 e63Escherichia coliMutation(s): 0 
Gene Names: rpmC
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50S ribosomal protein L30 f59Escherichia coliMutation(s): 0 
Gene Names: rpmD
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50S ribosomal protein L31 g70Escherichia coliMutation(s): 0 
Gene Names: rpmE
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50S ribosomal protein L2 h273Escherichia coliMutation(s): 0 
Gene Names: rplB
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Entity ID: 48
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50S ribosomal protein L32 i57Escherichia coliMutation(s): 0 
Gene Names: rpmF
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Entity ID: 49
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50S ribosomal protein L3 j209Escherichia coliMutation(s): 0 
Gene Names: rplC
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Entity ID: 50
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50S ribosomal protein L33 k55Escherichia coliMutation(s): 0 
Gene Names: rpmG
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50S ribosomal protein L4 l201Escherichia coliMutation(s): 0 
Gene Names: rplD
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50S ribosomal protein L34 m46Escherichia coliMutation(s): 0 
Gene Names: rpmH
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50S ribosomal protein L5 n179Escherichia coliMutation(s): 0 
Gene Names: rplE
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50S ribosomal protein L35 o65Escherichia coliMutation(s): 0 
Gene Names: rpmI
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50S ribosomal protein L6 p177Escherichia coliMutation(s): 0 
Gene Names: rplF
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Entity ID: 56
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50S ribosomal protein L36 q38Escherichia coliMutation(s): 0 
Gene Names: rpmJ
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50S ribosomal protein L9 r149Escherichia coliMutation(s): 0 
Gene Names: rplI
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Entity ID: 58
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50S ribosomal protein L13 s142Escherichia coliMutation(s): 0 
Gene Names: rplM
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Entity ID: 59
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50S ribosomal protein L14 t123Escherichia coliMutation(s): 0 
Gene Names: rplN
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Entity ID: 60
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50S ribosomal protein L15 u144Escherichia coliMutation(s): 0 
Gene Names: 
rplO, A8C65_19395, A9R57_24660, ACU57_21045, AM464_09135, AUQ13_22145, BANRA_01932, BANRA_03684, BHS87_18545, BJJ90_02210, BMA87_18510, BON75_18850, BON98_13310, BUE81_25610, BvCms2454_01416, BvCmsHHP001_00334, BvCmsHHP019_04131, BvCmsHHP056_02703, BvCmsKSP026_02554, BvCmsSINP011_02480, BW690_10710, BZL31_22885, C5F72_02595, C5F73_02860, C5N07_23575, C9E25_20065, C9Z39_20710, CA593_09735, CG692_20270, CI693_13520, CI694_01990, CIG45_22410, D0X26_24495, D2185_22985, D3821_17755, D3O91_20305, D3Y67_24390, D4638_19455, D4718_17880, D9C99_17930, D9D20_21995, D9D44_22490, D9G29_15635, D9G69_20945, D9H68_17710, D9J52_19090, D9Z28_15390, DAH37_14685, DBQ99_03415, DJ503_19770, DL326_22310, DNC98_19095, DT034_22410, DTL43_21000, E2119_19640, E2134_21880, E2135_06185, E4A44_21305, E4K51_21490, E4K55_21420, E4K60_18985, E4K61_20025, E5P22_10480, E5P28_20875, EA213_19860, EAI42_04990, EAI52_16365, EC1094V2_354, EC3234A_55c00230, EC3426_04459, ECTO6_00449, ED307_17010, EEP23_17135, EG808_17075, EI021_21030, EI028_20740, EI032_18995, EI041_20035, EIZ93_12470, EL75_0396, EL79_0415, EL80_0407, ELT20_19170, EPT01_19765, ERS085365_03907, ERS085416_03881, ERS139211_03685, ERS150873_04051, EXX71_21335, EYD11_02080, F1E19_19655, F9040_18095, FRV13_20015, FV293_22465, FWK02_06270, G5632_17770, G5688_20025, GHR40_07050, GKF39_20550, GKF74_18130, GKF86_20070, GKF89_18470, GP671_20580, GP689_20785, GP954_00945, GP979_02005, GQE33_22230, GQE34_14255, GQE64_20420, GQM17_19915, GRW05_09060, GRW27_21285, GRW42_19350, GRW57_03540, GRW80_20585, GRW81_21150, NCTC10963_00456, NCTC11022_03475, NCTC11126_02772, NCTC12650_00710, NCTC13216_01351, NCTC9045_00567, NCTC9062_02686, NCTC9117_00757, NCTC9706_02738, PGD_00585, RK56_021420, SAMEA3472047_03862, SAMEA3472080_04748, SAMEA3484427_04887, SAMEA3484429_04875, SAMEA3752559_00346, SAMEA3753300_02227

Find proteins for A0A037Y8L6 (Escherichia coli)
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Entity ID: 61
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L16 v136Escherichia coliMutation(s): 0 
Gene Names: rplP
Find proteins for P0ADY7 (Escherichia coli (strain K12))
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Entity ID: 62
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17 w127Escherichia coliMutation(s): 0 
Gene Names: rplQ
Find proteins for D6I1Y5 (Escherichia coli B088)
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Entity ID: 63
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L18 x117Escherichia coliMutation(s): 0 
Gene Names: rplR
Find proteins for D7Z9H1 (Escherichia coli MS 69-1)
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Entity ID: 64
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19 y115Escherichia coliMutation(s): 0 
Gene Names: rplS
Find proteins for D7ZKU3 (Escherichia coli MS 69-1)
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Entity ID: 65
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20 z118Escherichia coliMutation(s): 0 
Gene Names: rplT
Find proteins for L3CCT0 (Escherichia coli KTE193)
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Entity ID: 6
MoleculeChainsLengthOrganismImage
NT DNA536synthetic construct
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Entity ID: 7
MoleculeChainsLengthOrganismImage
T DNA636synthetic construct
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Entity ID: 8
MoleculeChainsLengthOrganismImage
mRNA with 24 nt long spacer741synthetic construct
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Entity ID: 10
MoleculeChainsLengthOrganismImage
E-site and P-site tRNA (fMet)A, B76Escherichia coli
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Entity ID: 17
MoleculeChainsLengthOrganismImage
16S rRNAD1542Escherichia coli
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Entity ID: 40
MoleculeChainsLengthOrganismImage
23S rRNAa2904Escherichia coli
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Entity ID: 43
MoleculeChainsLengthOrganismImage
5S rRNAd120Escherichia coli
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN
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AE
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
MG
Query on MG
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AE
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.00 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 

  • 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