6VU3

Cryo-EM structure of Escherichia coli transcription-translation complex A (TTC-A) containing mRNA with a 12 nt long spacer


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]94Escherichia coliMutation(s): 0 
Gene Names: rplW
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L24D [auth 3]103Escherichia coliMutation(s): 0 
Gene Names: rplX
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Find proteins for D7XKZ6 (Escherichia coli MS 84-1)
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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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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L10I [auth 9]148Escherichia coliMutation(s): 0 
Gene Names: rplJ
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit betaK [auth AA]1342Escherichia coliMutation(s): 0 
Gene Names: rpoB
EC: 2.7.7.6
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Find proteins for A0A140SS80 (Escherichia coli (strain B / BL21-DE3))
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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]
230Escherichia coliMutation(s): 0 
Gene Names: rpoAELT49_23095
EC: 2.7.7.6
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta'O [auth AE]1407Escherichia coliMutation(s): 1 
Gene Names: rpoCBvCmsKKP036_03580EYX47_21890G5696_22040
EC: 2.7.7.6
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S18Q [auth C]66Escherichia coliMutation(s): 0 
Gene Names: rpsR
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S20S [auth E]86Escherichia coliMutation(s): 0 
Gene Names: rpsT
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S21T [auth F]70Escherichia coliMutation(s): 0 
Gene Names: rpsU
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Find proteins for E9TH65 (Escherichia coli MS 117-3)
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S2U [auth G]225Escherichia coliMutation(s): 0 
Gene Names: 
rpsBA2F99_001367A5U30_000304A6583_16605A6592_02990A8499_001874A8C65_17850A8W81_000033A8X14_001297A8X68_000033A9819_00790AAG43_001513AAG80_000434AAG81_004372AAS29_001208ABT96_000033ACW72_001741ADS93_001964AM340_01170AM464_17645AMK64_000524AO169_000709APX88_24825AT335_002551AT845_002206AUQ29_01560AW059_09840AW086_02685AW118_17855AWP47_05585AZZ83_003980B2D52_000448B5N24_001036B6L15_001200B6R12_000948B6R15_000228B6R17_000033B6R27_000725B6R48_000725B6R87_000726B7C15_000587B9T59_07520BANRA_02273BANRA_03339BE930_13685BE963_14830BER14_07785BF271_001565BF481_003689BFL24_00935BG821_001278BH692_11605BHS87_00800BIQ87_00790BIZ41_19080BJI68_15640BJJ90_21360BK272_10840BK373_09595BK375_04645BKD45_001086BM922_001352BMC34_001127BMC79_000033BMR21_15835BMT49_02175BMT91_01365BO068_002859BO178_001944BOB65_001496BON65_09430BON66_02955BON73_05315BON83_24855BON86_04410BON87_26695BON91_06960BON92_02750BON93_03940BON96_17215BON98_18185BOY03_001163BR158_000500BR331_02985BRV34_001356BRV41_001378BUE81_01710BUE82_19980BvCms2454_04107BvCmsC61A_04364BvCmsHHP019_00044BvCmsHHP056_04094BvCmsKKP005_03191BvCmsKKP036_03788BvCmsKSP076_03014BvCmsSIP024_03994BWI89_14055BXT93_00705BZL69_20205C2121_002936C2M16_10795C2U48_09610C3F40_12245C4952_002845C4M78_19960C5715_17350C5F72_21625C5N07_08575C5Y87_12570C6B13_04325C6L19_002514C9E67_25210C9Z43_09525C9Z62_06970C9Z68_04785CA593_02870CBT22_000307CCV12_002000CCV24_000720CCZ91_001649CD42_002697CDC27_24690CDL36_07905CDL37_07245CDL57_02235CG692_09500CG831_000820CIG67_16575CLG78_001128CQP61_22090CR539_04935CS116_000033CSE52_002183CT143_22140CX692_001437CX693_001437CX694_000987CX699_001375CXJ73_002503CY655_00895CYM75_004174D0X26_09420D1912_13690D2183_03890D3822_17335D3G36_16675D3O91_03185D3Y67_16405D4U49_05950D6T60_04050D9D31_08885D9D43_02305D9E34_01105D9E49_02145D9F92_13895D9H13_16245D9J03_00165D9J11_16825D9J61_11510D9K17_15695DAH23_11200DAH34_04190DAH37_16335DAH50_07060DD762_01090DEN86_04070DL654_15710DLW88_03755DLX40_11060DM968_04645DN627_10245DNX30_02270DP258_09355DS966_12905DTL43_05925DTL90_09735DTM10_02780DTM45_12630DU321_03650DXB10_06645DXT73_18920E0N24_06870E0P28_15450E2112_01240E2119_15580E2123_15000E2127_15010E2128_01350E2129_02860E2135_11635E3N34_09355E4K51_05790E4K54_08040E5P52_06840E5S61_20145E5S62_13855EA239_13420EA435_20380EBP16_09105EC3234A_2c01500ECs0171ED648_00165EI021_19845EI041_03160EIA08_06325EIZ93_07925EL79_3705EL80_3652ELT17_01250ELT21_15045ELT29_02915ELT31_08695ELT33_15870ELT48_12180ELT49_18475ELT58_11815ELT72_19820ELU83_06360ELU85_21270ELU95_07270ELV10_05885ELV13_13145ELV15_10275ELV22_16455ELV24_19200ELV28_04185ELX56_19475ELX68_15965ELX69_11255ELX70_19405ELX76_14550ELX79_12490ELX83_20605ELX96_04945ELY23_06765ELY24_11290ELY32_08455ELY41_06540ELY48_16915ELY50_16140EO241_11800EPS76_09885EQO00_21085ERS085358_03257ERS085366_02719ERS085386_01543ERS085406_00569ERS085411_00031ERS139208_01228Esc0902E_01690ETECE1373_03887ETECE925_03850EVY14_15615EWK56_14885ExPECSC038_03990EXX13_05315EXX79_00170EYX47_12820EYY34_22885F2N27_19280F2N28_19555F2N31_00165F3N40_16020F7F11_02075F9386_00170F9400_15990F9407_10155F9571_18160F9B07_03520F9S76_22065F9S83_02275F9V07_07505F9V22_04715F9V24_09500F9X20_009285F9X20_09355FA849_08720FA868_06535FDM60_08820FE587_16370FEJ01_15060FEL34_01755FFF58_06185FGG80_07195FGY90_12915FHD44_14150FHR00_00170FJQ51_00170FKO60_12340FNJ67_21465FOI11_012840FOI11_22840FPI65_00925FPS82_06120FQ021_14140FQE77_12245FQF29_01530FV293_02895FY127_02945FZC17_23565FZN26_20725FZN30_04795FZN31_19985G3565_18165G3813_000515G4A38_19340G5603_21760G5696_01310G6P89_20360G6Z99_21820G7635_002420GAJ26_21380GBE29_06535GF147_13280GF199_00160GF646_01380GF699_14270GFY34_15725GFY48_19085GFZ60_03495GGB84_001276GIB53_10120GJ11_00885GKE84_09020GKF52_14725GKF86_01190GKF89_14780GKG12_02120GKZ24_00170GLW94_14810GNO40_01330GOP20_16745GP662_15455GP711_09530GQA06_13075GQE42_12800GQE64_01395GQE87_01035GQM13_12620GQR15_00165GQW07_00970GQW68_00170GQW80_13515GRC73_19590GRO95_02765GRQ19_00165GRW05_07695GRW57_10410GRW80_16650GRW81_09810GSY44_00165GTP88_05405GUB08_19160GUB92_12155GUI33_00165GW978_09660GXU05_001402GXV26_001258H0O53_18585H0O72_10185H4P50_20635H4P51_20485H5C78_04195HCF72_000033HH411_000480HH795_000802HHG09_000093HI055_000776HIE29_003103HIF90_000033HIN64_000550HIO80_003172HIT56_004089HJ940_000277HJ942_003221HJM92_002760HJN04_003133HJO75_000276HJQ60_000692HJS37_001627HJS41_003083HJU54_003402HL425_05505HL563_02735HL601_07700HLU10_19960HLU56_21430HLV18_20625HLZ20_18045HLZ50_06960HmCms169_00360HmCms184_03911HmCmsJML074_03001HMJ82_00170HMT08_17585HMU06_10055HMU48_04755HMV41_18170HMV95_04585HMW38_10575HNC30_00170HNC36_16160HNC38_19270HNC52_16430HNC59_20345HNC66_11685HNC75_04075HNC99_17425HND12_10355HND24_07510HNO08_14310HNV94_05400HNY50_06345HNY54_07080HPE39_04360HV109_19380HVV39_17630HVV53_21500HVW04_10225HVW22_02385HVW43_11755HVX16_21155HVX31_16115HVZ30_16745HVZ71_20400HX136_20600HZ71_000497HZ72_000283I6H00_14085I6H01_17695IA00_000033MJ49_06195MS7163_00186NCTC10082_01383NCTC10089_04076NCTC10090_02160NCTC10767_03962NCTC10974_04616NCTC11126_03634NCTC12950_04424NCTC13127_05455NCTC13148_05196NCTC4450_07399NCTC7922_05813NCTC7927_04507NCTC7928_04613NCTC8008_03673NCTC8450_01117NCTC8500_04546NCTC8621_04202NCTC8959_04843NCTC9044_03184NCTC9045_04711NCTC9048_04434NCTC9050_02026NCTC9117_05053NCTC9434_02610NCTC9702_04760NCTC9706_01337NCTC9775_02328NCTC9777_00472NCTC9969_04265PGD_03810SAMEA3472044_04157SAMEA3472056_00973SAMEA3472064_04388SAMEA3472080_03752SAMEA3472112_04653SAMEA3472117_04738SAMEA3472120_03165SAMEA3472147_00380SAMEA3484427_01375SAMEA3484429_01106SAMEA3751407_04814SAMEA3752312_01943SAMEA3752386_04702SAMEA3752557_00874SAMEA3753300_01863SM09_00909THOESC010_36700TUM18780_36030UN91_10580WP2S18E08_37750WP4S18E07_36950WP4S18E08_36600WQ89_09555

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Find proteins for C3TPN2 (Escherichia coli)
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S1V [auth H]557Escherichia coliMutation(s): 0 
Gene Names: rpsA
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Entity ID: 21
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30S ribosomal protein S3W [auth I]208Escherichia coliMutation(s): 0 
Gene Names: rpsCNCTC9094_00425
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Entity ID: 22
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30S ribosomal protein S4X [auth J]205Escherichia coliMutation(s): 0 
Gene Names: rpsD
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Entity ID: 23
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30S ribosomal protein S5Y [auth K]156Escherichia coliMutation(s): 0 
Gene Names: rpsE
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Entity ID: 24
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30S ribosomal protein S6Z [auth L]104Escherichia coliMutation(s): 0 
Gene Names: rpsFNCTC8179_00894
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Entity ID: 25
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30S ribosomal protein S7AA [auth M]151Escherichia coliMutation(s): 0 
Gene Names: rpsG
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Entity ID: 26
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30S ribosomal protein S8BA [auth N]129Escherichia coliMutation(s): 0 
Gene Names: rpsH
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Entity ID: 27
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30S ribosomal protein S9CA [auth O]127Escherichia coliMutation(s): 0 
Gene Names: rpsI
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Entity ID: 28
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30S ribosomal protein S10DA [auth P]99Escherichia coliMutation(s): 0 
Gene Names: rpsJ
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Entity ID: 29
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30S ribosomal protein S11EA [auth Q]117Escherichia 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]100Escherichia coliMutation(s): 0 
Gene Names: rpsN
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Entity ID: 32
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30S ribosomal protein S15HA [auth T]88Escherichia 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
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S17JA [auth V]80Escherichia coliMutation(s): 0 
Gene Names: rpsQ
UniProt
Find proteins for A0A080IK26 (Escherichia coli 1-250-04_S3_C2)
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Entity ID: 35
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30S ribosomal protein S19KA [auth W]83Escherichia coliMutation(s): 0 
Gene Names: rpsS
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S13LA [auth X]116Escherichia coliMutation(s): 0 
Gene Names: rpsM
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Find proteins for A0A4P8BX31 (Escherichia coli O145:NM)
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L11MA [auth Y]141Escherichia coliMutation(s): 0 
Gene Names: rplK
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Entity ID: 38
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L7/L12NA [auth Z]30Escherichia coliMutation(s): 0 
Gene Names: rplLDXB10_23380E3N34_20970NCTC10767_00718NCTC9081_06478
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Entity ID: 40
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50S ribosomal protein L27PA [auth b]76Escherichia coliMutation(s): 0 
Gene Names: rpmA
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Entity ID: 41
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50S ribosomal protein L28QA [auth c]77Escherichia coliMutation(s): 0 
Gene Names: rpmB
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Entity ID: 43
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50S ribosomal protein L29SA [auth e]62Escherichia coliMutation(s): 0 
Gene Names: rpmC
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Entity ID: 44
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50S ribosomal protein L30TA [auth f]58Escherichia coliMutation(s): 0 
Gene Names: rpmD
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Find proteins for I2X1N4 (Escherichia coli 4.0967)
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Entity ID: 45
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50S ribosomal protein L31UA [auth g]66Escherichia coliMutation(s): 0 
Gene Names: rpmE
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Find proteins for V0YYV3 (Escherichia coli 908573)
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Entity ID: 46
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50S ribosomal protein L2VA [auth h]271Escherichia coliMutation(s): 0 
Gene Names: rplB
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Find proteins for P60422 (Escherichia coli (strain K12))
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Entity ID: 47
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50S ribosomal protein L32WA [auth i]56Escherichia coliMutation(s): 0 
Gene Names: rpmF
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Find proteins for E3PJQ3 (Escherichia coli O78:H11 (strain H10407 / ETEC))
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Entity ID: 48
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50S ribosomal protein L3XA [auth j]209Escherichia coliMutation(s): 0 
Gene Names: rplC
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Entity ID: 49
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50S ribosomal protein L33YA [auth k]52Escherichia coliMutation(s): 0 
Gene Names: rpmG
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Find proteins for L4IX08 (Escherichia coli KTE146)
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Entity ID: 50
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50S ribosomal protein L4ZA [auth l]201Escherichia coliMutation(s): 0 
Gene Names: rplD
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Entity ID: 51
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50S ribosomal protein L34AB [auth m]46Escherichia coliMutation(s): 0 
Gene Names: rpmH
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Find proteins for B7MGC4 (Escherichia coli O45:K1 (strain S88 / ExPEC))
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Entity ID: 52
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50S ribosomal protein L5BB [auth n]177Escherichia coliMutation(s): 0 
Gene Names: rplE
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Find proteins for S1EUW9 (Escherichia coli KTE73)
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Entity ID: 53
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50S ribosomal protein L35CB [auth o]64Escherichia coliMutation(s): 0 
Gene Names: rpmI
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Entity ID: 54
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50S ribosomal protein L6DB [auth p]175Escherichia 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 
Gene Names: 
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Find proteins for A0A037Y8L6 (Escherichia coli)
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Entity ID: 60
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50S ribosomal protein L16JB [auth v]136Escherichia coliMutation(s): 0 
Gene Names: rplP
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Find proteins for P0ADY7 (Escherichia coli (strain K12))
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Entity ID: 61
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17KB [auth w]119Escherichia coliMutation(s): 0 
Gene Names: rplQC6985_20075DXB10_21745E3N34_07125NCTC10767_01524NCTC9081_00927
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Find proteins for A0A2T1LEK9 (Escherichia coli)
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Entity ID: 62
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50S ribosomal protein L18LB [auth x]116Escherichia coliMutation(s): 0 
Gene Names: rplR
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Find proteins for F4TL27 (Escherichia coli M718)
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Entity ID: 63
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50S ribosomal protein L19MB [auth y]114Escherichia coliMutation(s): 0 
Gene Names: rplS
UniProt
Find proteins for A0A4P8C2I6 (Escherichia coli O145:NM)
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Entity ID: 64
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20NB [auth z]117Escherichia coliMutation(s): 0 
Gene Names: rplT
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Entity ID: 6
MoleculeChainsLengthOrganismImage
NT DNAF [auth 5]36synthetic construct
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Entity ID: 7
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T DNAG [auth 6]27synthetic construct
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Entity ID: 8
MoleculeChainsLengthOrganismImage
mRNA with 12 nt long spacerH [auth 7]29synthetic construct
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Entity ID: 10
MoleculeChainsLengthOrganismImage
E-site and A-site tRNA (fMet)J [auth A],
P [auth B]
76Escherichia coli
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Entity ID: 16
MoleculeChainsLengthOrganismImage
16S rRNAR [auth D]1542Escherichia coli
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Entity ID: 39
MoleculeChainsLengthOrganismImage
23S rRNAOA [auth a]2904Escherichia 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

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

Download Ideal Coordinates CCD File 
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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Entry History 

Deposition Data

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