6WD8

Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure III-A)


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 1.1 of the entry. See complete history


Literature

Cryo-EM of elongating ribosome with EF-Tu•GTP elucidates tRNA proofreading.

Loveland, A.B.Demo, G.Korostelev, A.A.

(2020) Nature 

  • DOI: 10.1038/s41586-020-2447-x
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Ribosomes accurately decode mRNA by proofreading each aminoacyl-tRNA that is delivered by the elongation factor EF-Tu 1 . To understand the molecular mechanism of this proofreading step it is necessary to visualize GTP-catalysed elongation ...

    Ribosomes accurately decode mRNA by proofreading each aminoacyl-tRNA that is delivered by the elongation factor EF-Tu 1 . To understand the molecular mechanism of this proofreading step it is necessary to visualize GTP-catalysed elongation, which has remained a challenge 2-4 . Here we use time-resolved cryogenic electron microscopy to reveal 33 ribosomal states after the delivery of aminoacyl-tRNA by EF-Tu•GTP. Instead of locking cognate tRNA upon initial recognition, the ribosomal decoding centre dynamically monitors codon-anticodon interactions before and after GTP hydrolysis. GTP hydrolysis enables the GTPase domain of EF-Tu to extend away, releasing EF-Tu from tRNA. The 30S subunit then locks cognate tRNA in the decoding centre and rotates, enabling the tRNA to bypass 50S protrusions during accommodation into the peptidyl transferase centre. By contrast, the decoding centre fails to lock near-cognate tRNA, enabling the dissociation of near-cognate tRNA both during initial selection (before GTP hydrolysis) and proofreading (after GTP hydrolysis). These findings reveal structural similarity between ribosomes in initial selection states 5,6 and in proofreading states, which together govern the efficient rejection of incorrect tRNA.


    Organizational Affiliation

    RNA Therapeutics Institute, Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA, USA. andrei.korostelev@umassmed.edu.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L2b271Escherichia coliMutation(s): 0 
Find proteins for P60422 (Escherichia coli (strain K12))
Explore P60422 
Go to UniProtKB:  P60422
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L4d201Escherichia coliMutation(s): 0 
Find proteins for D7Z9F6 (Escherichia coli MS 69-1)
Explore D7Z9F6 
Go to UniProtKB:  D7Z9F6
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L5e177Escherichia coliMutation(s): 0 
Find proteins for S1EUW9 (Escherichia coli KTE73)
Explore S1EUW9 
Go to UniProtKB:  S1EUW9
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L15l143Escherichia coliMutation(s): 0 
Gene Names: 
rplOA8C65_19395A9R57_24660ACU57_21045AM464_09135AUQ13_22145BANRA_01932BANRA_03684BHS87_18545BJJ90_02210BMA87_18510BON75_18850BUE81_25610BvCms2454_01416BvCmsHHP001_00334BvCmsHHP019_04131BvCmsHHP056_02703BvCmsKSP026_02554BvCmsSINP011_02480BW690_10710BZL31_22885C5N07_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_06185E4K55_21420E4K60_18985E4K61_20025E5P22_10480E5P28_20875EA213_19860EAI42_04990EAI52_16365EC1094V2_354EC3234A_55c00230EC3426_04459ECTO6_00449ED307_17010EEP23_17135EG808_17075EI021_21030EI028_20740EI032_18995EI041_20035EIZ86_16985EIZ93_12470EL75_0396EL79_0415EL80_0407ELT20_19170EPT01_19765ERS085365_03907ERS085416_03881ERS139211_03685ERS150873_04051EXX71_21335EYD11_02080F1E19_19655FRV13_20015FV293_22465FWK02_06270GHR40_07050GKF74_18130GKF86_20070GKF89_18470GP689_20785GQE34_14255GQE64_20420GQM17_19915GRW42_19350GRW80_20585NCTC10963_00456NCTC11022_03475NCTC11126_02772NCTC12650_00710NCTC13216_01351NCTC9045_00567NCTC9062_02686NCTC9117_00757NCTC9706_02738PGD_00585RK56_021420SAMEA3472047_03862SAMEA3472080_04748SAMEA3484427_04887SAMEA3484429_04875SAMEA3752559_00346SAMEA3753300_02227

Find proteins for A0A037Y8L6 (Escherichia coli)
Explore A0A037Y8L6 
Go to UniProtKB:  A0A037Y8L6
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L18o116Escherichia coliMutation(s): 0 
Find proteins for U9ZRE5 (Escherichia coli 907713)
Explore U9ZRE5 
Go to UniProtKB:  U9ZRE5
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L19p114Escherichia coliMutation(s): 0 
Find proteins for A0A4P8C2I6 (Escherichia coli O145:NM)
Explore A0A4P8C2I6 
Go to UniProtKB:  A0A4P8C2I6
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L24u102Escherichia coliMutation(s): 0 
Find proteins for U9ZRE0 (Escherichia coli 907713)
Explore U9ZRE0 
Go to UniProtKB:  U9ZRE0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L30z58Escherichia coliMutation(s): 0 
Find proteins for I2X6E7 (Escherichia coli 2.3916)
Explore I2X6E7 
Go to UniProtKB:  I2X6E7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L34D46Escherichia coliMutation(s): 0 
Find proteins for B7MGC4 (Escherichia coli O45:K1 (strain S88 / ExPEC))
Explore B7MGC4 
Go to UniProtKB:  B7MGC4
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L35E64Escherichia coliMutation(s): 0 
Find proteins for E1IKL4 (Escherichia coli MS 145-7)
Explore E1IKL4 
Go to UniProtKB:  E1IKL4
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L36F38Escherichia coliMutation(s): 0 
Find proteins for A0A0E2L017 (Escherichia coli (strain UMEA 3162-1))
Explore A0A0E2L017 
Go to UniProtKB:  A0A0E2L017
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S6K100Escherichia coliMutation(s): 0 
Find proteins for S1CG62 (Escherichia coli KTE64)
Explore S1CG62 
Go to UniProtKB:  S1CG62
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S7L151Escherichia coliMutation(s): 0 
Find proteins for S1D5F0 (Escherichia coli KTE64)
Explore S1D5F0 
Go to UniProtKB:  S1D5F0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S10O98Escherichia coliMutation(s): 0 
Find proteins for D7X302 (Escherichia coli MS 198-1)
Explore D7X302 
Go to UniProtKB:  D7X302
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S12Q123Escherichia coliMutation(s): 0 
Find proteins for V6FZ95 (Escherichia coli 99.0741)
Explore V6FZ95 
Go to UniProtKB:  V6FZ95
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S13R114Escherichia coliMutation(s): 0 
Find proteins for A0A1X3KX08 (Escherichia coli H420)
Explore A0A1X3KX08 
Go to UniProtKB:  A0A1X3KX08
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S20Y85Escherichia coliMutation(s): 0 
Find proteins for T6N332 (Escherichia coli HVH 87)
Explore T6N332 
Go to UniProtKB:  T6N332
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 50
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S21Z65Escherichia coliMutation(s): 0 
Find proteins for E9TH65 (Escherichia coli MS 117-3)
Explore E9TH65 
Go to UniProtKB:  E9TH65
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L14k122Escherichia coliMutation(s): 0 
Find proteins for V0AIT6 (Escherichia coli 909945-2)
Explore V0AIT6 
Go to UniProtKB:  V0AIT6
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L16m136Escherichia coliMutation(s): 0 
Find proteins for P0ADY7 (Escherichia coli (strain K12))
Explore P0ADY7 
Go to UniProtKB:  P0ADY7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L17n120Escherichia coliMutation(s): 0 
Find proteins for A0A1X3K2N0 (Escherichia coli H461)
Explore A0A1X3K2N0 
Go to UniProtKB:  A0A1X3K2N0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L20q117Escherichia coliMutation(s): 0 
Find proteins for L3P526 (Escherichia coli KTE66)
Explore L3P526 
Go to UniProtKB:  L3P526
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L21r103Escherichia coliMutation(s): 0 
Find proteins for D7ZEN7 (Escherichia coli MS 69-1)
Explore D7ZEN7 
Go to UniProtKB:  D7ZEN7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L22s110Escherichia coliMutation(s): 0 
Find proteins for D7Z9G0 (Escherichia coli MS 69-1)
Explore D7Z9G0 
Go to UniProtKB:  D7Z9G0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L23t93Escherichia coliMutation(s): 0 
Find proteins for B7L4K1 (Escherichia coli (strain 55989 / EAEC))
Explore B7L4K1 
Go to UniProtKB:  B7L4K1
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L3c209Escherichia coliMutation(s): 0 
Find proteins for P60438 (Escherichia coli (strain K12))
Explore P60438 
Go to UniProtKB:  P60438
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L25v94Escherichia coliMutation(s): 0 
Find proteins for D7XH79 (Escherichia coli MS 84-1)
Explore D7XH79 
Go to UniProtKB:  D7XH79
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L27w75Escherichia coliMutation(s): 0 
Find proteins for I2X5R7 (Escherichia coli 2.3916)
Explore I2X5R7 
Go to UniProtKB:  I2X5R7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L28x77Escherichia coliMutation(s): 0 
Find proteins for D6IFL9 (Escherichia coli B185)
Explore D6IFL9 
Go to UniProtKB:  D6IFL9
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L29y63Escherichia coliMutation(s): 0 
Find proteins for D7Z9G3 (Escherichia coli MS 69-1)
Explore D7Z9G3 
Go to UniProtKB:  D7Z9G3
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L32B56Escherichia coliMutation(s): 0 
Find proteins for E3PJQ3 (Escherichia coli O78:H11 (strain H10407 / ETEC))
Explore E3PJQ3 
Go to UniProtKB:  E3PJQ3
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L33C50Escherichia coliMutation(s): 0 
Find proteins for L3NSS9 (Escherichia coli KTE66)
Explore L3NSS9 
Go to UniProtKB:  L3NSS9
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S2G225Escherichia coliMutation(s): 0 
Gene Names: 
rpsBA6581_19565A6592_02990A8C65_17850A9819_00790A9P13_21180A9R57_04400AC067_04635AJ318_03080AM446_22760AM464_17645AM465_25885AML35_22875APT94_19995APU18_02555ARC77_20180AU473_25970AUQ13_07500AW059_09840AWE53_010740AWF59_003780AWG78_007095AWG90_002345AWP75_13480AZZ83_003980B6V57_00930B7C53_01360B9M99_16250B9N33_22515B9T59_07520BANRA_00547BANRA_02273BANRA_03339BE963_14830BEN53_03085BER14_07785BFD68_21815BHF03_16550BHF46_07885BHS87_00800BIQ87_00790BIU72_13410BIZ41_19080BJJ90_21360BK248_07255BK334_15020BK373_09595BK375_04645BK383_20240BMA87_12300BMT49_02175BMT91_01365BON65_09430BON66_02955BON75_17145BON83_24855BON86_04410BON87_26695BON91_06960BON92_02750BON96_17215BTQ04_14405BUE81_01710BvCms12BK_00034BvCms2454_04107BvCms35BK_02145BvCmsC61A_04364BvCmsHHP001_04838BvCmsHHP019_00044BvCmsHHP056_04094BvCmsKKP036_03788BvCmsKSNP120_00104BvCmsKSP026_04711BvCmsKSP058_03767BvCmsKSP076_03014BvCmsNSP007_03764BvCmsSINP022_00326BW690_02470BWI89_14055BWP17_11915BXT93_00705BZL31_14940BZL69_20205C2M16_10795C2U48_09610C4K41_20910C4M78_19960C5715_17350C5N07_08575C5P44_18010C6669_04250C6B13_04325C7B06_05860C7B07_04280C7B08_09695C7B18_05305C9E25_15390C9E67_25210C9Z23_08405C9Z29_10375C9Z39_04990C9Z43_09525C9Z68_04785C9Z70_08115C9Z78_00165C9Z78_02775CA593_02870CCZ14_20505CCZ17_20470CDC27_24690CDL37_07245CG692_09500CI693_15090CI694_28160CIG45_06990CQP61_22090CR539_04935CRE06_00170CRJUMX01_610033CRT43_00990CRX46_05020CSB64_09595CT146_12115CUB99_08015CVH05_24475CWM24_05035D0X26_09420D1912_13690D2185_20130D2188_12785D3821_06210D3822_17335D3M98_08935D3O91_03185D3P01_06970D3P02_17575D3Y67_16405D4011_00170D4023_14650D4074_16625D4638_01785D4660_00170D4718_00170D4L91_00170D4M06_01450D4U49_05950D4U85_02335D4V08_16070D5I97_00170D6C36_00175D6D43_00170D6T60_04050D6X63_10625D6X76_09800D7K33_03410D7K63_00165D7K66_11610D7Y10_00165D8Y65_01905D9C99_12680D9D20_18630D9D31_08885D9D33_03385D9D43_02305D9D44_06780D9D94_08705D9E13_16330D9E34_01105D9E35_14530D9E49_02145D9E73_02485D9F17_00165D9F32_01785D9G11_19100D9G29_09875D9G42_07585D9G48_08785D9G69_05830D9H10_00165D9H36_21790D9H53_14245D9H68_13775D9H70_04355D9I20_08115D9I37_13510D9I87_01640D9I88_06435D9I97_03805D9J03_00165D9J11_16825D9J52_04560D9J58_13455D9J60_02075D9J78_12380D9K02_06620D9K54_16750D9L89_00165D9L99_05940D9X77_14905D9X97_00165D9Z28_03940DAH26_11215DAH34_04190DAH37_16335DAH43_04025DBQ99_21360DD762_01090DEN86_04070DJ487_06020DJ492_12760DJ503_00895DK132_00130DL251_18750DL257_01645DL292_03085DL326_07525DL455_01615DL979_07560DLT82_10665DLW88_03755DLX38_05600DLX40_11060DLY44_08780DM102_18365DM129_14540DM272_00165DM280_04680DM962_03245DM973_00130DMC44_08865DMI04_00170DMI53_01515DMO02_00170DMZ50_04115DN627_10245DN703_10125DNB37_01435DNC98_14250DND16_04815DNJ62_00170DNK12_00170DNR35_01445DNR41_13200DNX30_02270DOE35_00170DOM23_00165DOS18_01655DOT81_00170DOU81_00170DOY22_00170DOY56_00170DP258_09355DQE83_10255DQE91_03230DQG35_00170DRP48_00170DS721_00170DS966_12905DT034_05340DTL43_05925DTL90_09735DTM10_02780DTM45_12630DTZ20_16560DU309_06140DU321_03650DU333_05950DW236_10615DWB25_20305DXT73_18920DXX80_017135E0L04_16465E0L12_05055E2112_01240E2114_18160E2115_17375E2119_15580E2127_15010E2128_01350E2129_02860E2134_11975E2135_11635E2148_14070E4K55_06965E4K60_12610E4K61_17665E5P22_04090E5P28_13975E5P37_21190E5S46_19535E5S58_05605E5S61_20145EA159_18560EA167_19605EA189_12745EA191_19905EA198_08655EA200_20625EA203_17930EA213_17805EA214_17045EA218_05095EA222_15560EA225_05600EA231_02020EA232_17985EA233_03700EA242_20415EA245_19675EA250_20395EA410_04885EA429_13730EA434_02545EA435_20380EA834_19145EAI42_08300EAI52_11005EB509_04560EB510_04565EB515_00165EBA84_00165EBJ06_10275EC3234A_2c01500EC3426_00920EC382_02955ECONIH1_00890ECs0171ECTO124_04042ECTO6_03894ED225_10455ED307_13035ED607_02625ED611_09635ED648_00165ED903_08485ED944_00165EEA45_04510EEP23_00165EF082_10775EF173_00165EG808_13600EGC26_04060EGT48_20250EGU87_00165EHD45_00165EHD63_00165EHJ66_10080EHV81_01735EHV90_15890EHW09_06780EHX09_00165EI021_19845EI028_17525EI032_14690EI041_03160EIA08_06325EIA21_00165EIZ86_11710EIZ93_07925EL75_3596EL79_3705EL80_3652ELT20_04470ELT23_12175ELT33_15870ELT34_19890ELT48_12180ELT49_18475ELT58_11815ELU82_16775ELU85_21270ELU96_20275ELV05_06475ELV13_13145ELV15_10275ELV24_19200ELV28_04185ELX79_12490ELX83_20605ELY23_06765ELY24_11290ELY50_16140EO241_11800EPS76_09885EPS91_15145EPS94_12740EPT01_02595EPU41_00950EQ820_08895EQ823_16635EQ825_22910EQ830_01905ERL57_05895ERS085365_03087ERS085366_02719ERS085383_01177ERS085386_01543ERS085404_00708ERS085406_00569ERS085411_00031ERS085416_03650ERS139211_02987ERS150873_01111EST51_20100EVY14_15615EWK56_14885EXM29_15760ExPECSC019_03545ExPECSC038_03990ExPECSC065_04179EXX06_08815EXX13_05315EXX23_14665EXX53_06965EXX55_08280EXX71_19560EXX87_03335EYD11_18540EYX82_24365EYX99_20960EYY27_25445EYY34_22885F7F11_02075F7G01_02645F7G03_01455F9059_17980F9Z74_08200FAF34_018075FE846_19735FKO60_12340FNJ67_21465FNJ69_22375FNJ83_02345FORC82_3871FQU83_21885FRV13_02390FV293_02895FV295_13970FV438_03735FY127_02945GFU40_18985GFU45_18860GFU47_13780GHR40_00590GII91_13045GIY13_04535GIY19_11140GJ11_00885GJ638_08085GJD97_22995GKE15_05200GKE22_02185GKE24_06260GKE26_05200GKE29_08795GKE31_05160GKE39_03930GKE46_02210GKE58_05115GKE60_05170GKE64_02210GKE77_05545GKE87_12060GKE92_14180GKE93_04110GKF03_12930GKF28_16145GKF34_15440GKF47_15415GKF74_13200GKF86_01190GKF89_14780GKG08_11265GKG09_11865GKG11_12455GKG12_02120GKG22_11875GKG29_11915GN312_14025GNZ00_06515GNZ02_07900GP664_18015GP689_18795GP700_07630GP712_03555GP720_09585GP727_05960GP912_05760GQA06_13075GQE22_02625GQE34_08855GQE42_12800GQE47_19150GQE58_21125GQE64_01395GQE68_05070GQE88_09270GQM13_12620GQM17_05190GQN33_07395GQS26_13490GRW42_18985GRW80_16650HmCms169_00360HmCms184_03911HmCmsJML074_03001HmCmsJML146_01754HmCmsJML204_00825HMPREF3040_02610MJ49_06195MS6198_01840MS8345_00167NCTC10082_01383NCTC10089_04076NCTC10090_02160NCTC10767_03962NCTC10963_04191NCTC10974_04616NCTC11126_03634NCTC12650_04328NCTC12950_04424NCTC13127_05455NCTC13148_05196NCTC13846_03878NCTC7922_05813NCTC7927_04507NCTC7928_04613NCTC8450_01117NCTC8500_04546NCTC8621_04202NCTC8959_04843NCTC9007_00459NCTC9044_03184NCTC9045_04711NCTC9050_02026NCTC9058_02797NCTC9062_04214NCTC9117_05053NCTC9119_04267NCTC9434_02610NCTC9701_04378NCTC9702_04760NCTC9706_01337NCTC9777_00472NCTC9969_04265PGD_03810RK56_028000SAMEA3472044_04157SAMEA3472047_02498SAMEA3472056_00973SAMEA3472080_03752SAMEA3472090_04487SAMEA3472108_03201SAMEA3472110_04513SAMEA3472112_04653SAMEA3472147_00380SAMEA3484427_01375SAMEA3484429_01106SAMEA3484434_01147SAMEA3485113_00840SAMEA3752372_04458SAMEA3752557_00874SAMEA3752559_03712SAMEA3752620_02090SAMEA3753097_03905SAMEA3753164_02433SAMEA3753300_01863SK85_00168SY51_00965U12A_00178U14A_00177UC41_07420UN91_10580WQ89_09555YDC107_3394

Find proteins for C3TPN2 (Escherichia coli)
Explore C3TPN2 
Go to UniProtKB:  C3TPN2
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S3H206Escherichia coliMutation(s): 0 
Gene Names: rpsCNCTC9094_00425
Find proteins for A0A376HTV6 (Escherichia coli)
Explore A0A376HTV6 
Go to UniProtKB:  A0A376HTV6
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S4I205Escherichia coliMutation(s): 0 
Find proteins for L3PZ69 (Escherichia coli KTE75)
Explore L3PZ69 
Go to UniProtKB:  L3PZ69
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S5J157Escherichia coliMutation(s): 0 
Find proteins for H4JDL7 (Escherichia coli DEC1D)
Explore H4JDL7 
Go to UniProtKB:  H4JDL7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S8M129Escherichia coliMutation(s): 0 
Find proteins for D8A1L7 (Escherichia coli (strain MS 21-1))
Explore D8A1L7 
Go to UniProtKB:  D8A1L7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S9N127Escherichia coliMutation(s): 0 
Find proteins for T9TH92 (Escherichia coli UMEA 3718-1)
Explore T9TH92 
Go to UniProtKB:  T9TH92
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S11P116Escherichia coliMutation(s): 0 
Find proteins for I2UH22 (Escherichia coli 4.0522)
Explore I2UH22 
Go to UniProtKB:  I2UH22
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S14S100Escherichia coliMutation(s): 0 
Find proteins for I2X5X6 (Escherichia coli 2.3916)
Explore I2X5X6 
Go to UniProtKB:  I2X5X6
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S15T88Escherichia coliMutation(s): 0 
Find proteins for D7XN21 (Escherichia coli MS 84-1)
Explore D7XN21 
Go to UniProtKB:  D7XN21
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 45
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S16U82Escherichia coliMutation(s): 0 
Find proteins for B7MIU7 (Escherichia coli O45:K1 (strain S88 / ExPEC))
Explore B7MIU7 
Go to UniProtKB:  B7MIU7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 46
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S17V80Escherichia coliMutation(s): 0 
Find proteins for A0A080IK26 (Escherichia coli 1-250-04_S3_C2)
Explore A0A080IK26 
Go to UniProtKB:  A0A080IK26
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 47
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S18W65Escherichia coliMutation(s): 0 
Find proteins for E0J6I2 (Escherichia coli (strain ATCC 9637 / CCM 2024 / DSM 1116 / NCIMB 8666 / NRRL B-766 / W))
Explore E0J6I2 
Go to UniProtKB:  E0J6I2
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 48
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S19X79Escherichia coliMutation(s): 0 
Find proteins for F4SQ43 (Escherichia coli H736)
Explore F4SQ43 
Go to UniProtKB:  F4SQ43
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L6f176Escherichia coliMutation(s): 0 
Find proteins for H4KMR7 (Escherichia coli DEC2C)
Explore H4KMR7 
Go to UniProtKB:  H4KMR7
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L1a223Escherichia coliMutation(s): 0 
Gene Names: rplABON63_20085
Find proteins for A0A4Y8DMK0 (Escherichia coli)
Explore A0A4Y8DMK0 
Go to UniProtKB:  A0A4Y8DMK0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 58
MoleculeChainsSequence LengthOrganismDetails
Elongation factor Tu8400Escherichia coliMutation(s): 0 
Gene Names: 
tuftuf1tufAtufA_1tufA_2tufA_3tufB_1tufB_2tufBA9P13_02245A9X72_02070AC067_12120AC789_1c37060ACN002_3418AM446_03620AM464_09335AM465_06855AML07_01585APZ14_13105ARC77_13065AU473_05075AWB10_02155AWE53_006795AWF59_010955AWG78_014990AWG90_021265AWP75_19035B6V57_18815B9T59_15520BANRA_01970BANRA_03646BANRA_04126BANRA_04335BE963_07515BEN53_20435BHF03_09390BHJ80_22640BIQ87_18785BJJ90_02010BMT49_24875BTQ06_10735BvCmsC61A_04723BvCmsKSNP081_00774BvCmsKSP011_02523BvCmsKSP045_00158BvCmsKSP067_01746BvCmsKSP076_02854BvCmsOUP014_03145BVL39_09430BWI89_21310C2U48_16775C6669_11320C7235_02530C9E67_02680CA593_09545CDC27_17790CI641_009975CJU63_19840CJU64_19730CO706_15330CQP61_02980CR538_02300CR539_21945CRJUMX01_310033CRM83_22800CRT43_20110CUB99_15350CV83915_02772D2188_05325D6T60_05820D6X36_10690D9E49_05345D9G11_02195D9H10_11275D9H53_09125D9J44_13045DAH32_04085DAH34_07720DAH37_14885DAH43_07585DBQ99_03220DL545_02900DL800_24020DP258_06140DS732_24460DU309_11900DU321_12120DU333_19005DWB25_02475DXX80_010250E2128_03145E2135_05995E2855_04283E2863_04771EAM59_02840EAN70_04755EAX79_10840EB476_18730EB510_20520EC1094V2_316EC3426_04497EC95NR1_02716ECONIH1_19555ECTO124_00447ECTO6_00411ED600_00990EF173_09780EGT48_13185EGU87_02985EH412_04890EHD45_03280EHH55_25010EHJ36_03915EJ366_25290EKI52_17545EL75_0357EL79_0376EL80_0368ELU85_15840ELV05_17340ERS085366_00197ERS085383_04667ERS150876_04794EST51_02100EVY14_06790EYD11_01890EYY34_26310FNJ67_02845FNJ69_15500FNJ83_21205FORC82_0425FQR64_02400FQU83_03780FRV13_19825FZ043_22675GHR40_06860GIY13_07340GJ11_21575GJD97_02255GN312_07285HmCmsJML204_01458HW43_21560MJ49_13620MS6198_38410NCTC10082_02802NCTC10089_00479NCTC10090_03504NCTC10418_00666NCTC10429_01056NCTC10764_03840NCTC10766_02439NCTC10767_01484NCTC10963_00418NCTC10974_00469NCTC11022_03514NCTC11112_01080NCTC11181_02715NCTC12950_00442NCTC13127_00761NCTC13216_01389NCTC13846_00475NCTC7927_00512NCTC7928_02539NCTC8009_01486NCTC8179_05918NCTC8450_04914NCTC8959_03284NCTC8960_03047NCTC8985_04958NCTC9001_04211NCTC9007_04557NCTC9036_00516NCTC9044_01383NCTC9045_00524NCTC9050_03588NCTC9055_02345NCTC9058_01415NCTC9062_02728NCTC9075_00682NCTC9077_00581NCTC9111_00844NCTC9117_00717NCTC9119_00502NCTC9434_00393NCTC9701_00556NCTC9702_00514NCTC9703_04942NCTC9706_02611NCTC9777_01851NCTC9969_00634PGD_00547RG28_21735RK56_021215RX35_03105SAMEA3472043_04091SAMEA3472044_01125SAMEA3472055_01361SAMEA3472070_03569SAMEA3472090_03946SAMEA3472108_04510SAMEA3472112_00656SAMEA3472114_02350SAMEA3752372_00873SAMEA3752553_01030SAMEA3752559_00384SAMEA3752620_02670SAMEA3753064_01783SAMEA3753097_04557SAMEA3753164_02006SAMEA3753290_02475SAMEA3753300_02265SK85_03654SY51_19150U12A_03573U14A_03570YDC107_1993

Find proteins for E2QFJ4 (Escherichia coli)
Explore E2QFJ4 
Go to UniProtKB:  E2QFJ4
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L9g149Escherichia coliMutation(s): 0 
Find proteins for D7ZI15 (Escherichia coli MS 69-1)
Explore D7ZI15 
Go to UniProtKB:  D7ZI15
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L10h131Escherichia coliMutation(s): 0 
Find proteins for I2X1W0 (Escherichia coli 4.0967)
Explore I2X1W0 
Go to UniProtKB:  I2X1W0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L11i141Escherichia coliMutation(s): 0 
Find proteins for T6L9R3 (Escherichia coli HVH 87)
Explore T6L9R3 
Go to UniProtKB:  T6L9R3
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L13j142Escherichia coliMutation(s): 0 
Find proteins for D7ZET0 (Escherichia coli MS 69-1)
Explore D7ZET0 
Go to UniProtKB:  D7ZET0
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 52
MoleculeChainsLengthOrganism
16S ribosomal RNA31539Escherichia coli
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 56
MoleculeChainsLengthOrganism
mRNA418Escherichia coli

Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 57
MoleculeChainsLengthOrganism
tRNAPhe776Escherichia coli

Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 53
MoleculeChainsLengthOrganism
23S ribosomal RNA12903Escherichia coli

Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 54
MoleculeChainsLengthOrganism
5S ribosomal RNA2120Escherichia coli

Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 55
MoleculeChainsLengthOrganism
tRNAfMet5, 677Escherichia coli
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download CCD File 
8
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
FME
Query on FME

Download CCD File 
5
N-FORMYLMETHIONINE
C6 H11 N O3 S
PYUSHNKNPOHWEZ-YFKPBYRVSA-N
 Ligand Interaction
PHE
Query on PHE

Download CCD File 
7
PHENYLALANINE
C9 H11 N O2
COLNVLDHVKWLRT-QMMMGPOBSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 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 StatesR01 GM106105
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM107465
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35 GM127094

Revision History 

  • Version 1.0: 2020-07-08
    Type: Initial release
  • Version 1.1: 2020-07-15
    Changes: Database references