6XU8

Drosophila melanogaster Ovary 80S ribosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 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

Ribosome heterogeneity in Drosophila melanogaster gonads through paralog-switching.

Hopes, T.Norris, K.Agapiou, M.McCarthy, C.G.P.Lewis, P.A.O'Connell, M.J.Fontana, J.Aspden, J.L.

(2022) Nucleic Acids Res 50: 2240-2257

  • DOI: https://doi.org/10.1093/nar/gkab606
  • Primary Citation of Related Structures:  
    6XU6, 6XU7, 6XU8

  • PubMed Abstract: 

    Ribosomes have long been thought of as homogeneous macromolecular machines, but recent evidence suggests they are heterogeneous and could be specialised to regulate translation. Here, we have characterised ribosomal protein heterogeneity across 4 tissues of Drosophila melanogaster. We find that testes and ovaries contain the most heterogeneous ribosome populations, which occurs through a combination of paralog-enrichment and paralog-switching. We have solved structures of ribosomes purified from in vivo tissues by cryo-EM, revealing differences in precise ribosomal arrangement for testis and ovary 80S ribosomes. Differences in the amino acid composition of paralog pairs and their localisation on the ribosome exterior indicate paralog-switching could alter the ribosome surface, enabling different proteins to regulate translation. One testis-specific paralog-switching pair is also found in humans, suggesting this is a conserved site of ribosome heterogeneity. Overall, this work allows us to propose that mRNA translation might be regulated in the gonads through ribosome heterogeneity, providing a potential means of ribosome specialisation.


  • Organizational Affiliation

    School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds LS2 9JT, UK.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13aA [auth CO]205Drosophila melanogasterMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13B [auth CL]210Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for P41126 (Drosophila melanogaster)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23C [auth CV]134Drosophila melanogasterMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L14D [auth CM]159Drosophila melanogasterMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27aE [auth Ca]149Drosophila melanogasterMutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L15F [auth CN]203Drosophila melanogasterMutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10G [auth CI]217Drosophila melanogasterMutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L5H [auth CD]290Drosophila melanogasterMutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18I [auth CQ]187Drosophila melanogasterMutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L19J [auth CR]203Drosophila melanogasterMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L8K [auth CA]253Drosophila melanogasterMutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18aL [auth CS]173Drosophila melanogasterMutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
RE62581pM [auth CT]158Drosophila melanogasterMutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L17N [auth CP]185Drosophila melanogasterMutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
IP17216pO [auth CX]120Drosophila melanogasterMutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
GEO07453p1P [auth CY]131Drosophila melanogasterMutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27Q [auth CZ]134Drosophila melanogasterMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L28R [auth Cr]134Drosophila melanogasterMutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
FI02809pS [auth Ch]123Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for Q9W499 (Drosophila melanogaster)
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29T [auth Cb]75Drosophila melanogasterMutation(s): 0 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L3U [auth CB]414Drosophila melanogasterMutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7V [auth CF]226Drosophila melanogasterMutation(s): 0 
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
RE25263pW [auth Cc]100Drosophila melanogasterMutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L32X [auth Ce]132Drosophila melanogasterMutation(s): 0 
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
GEO07455p1Y [auth Cf]157Drosophila melanogasterMutation(s): 0 
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36Z [auth Ci]113Drosophila melanogasterMutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L38AA [auth Ck]70Drosophila melanogasterMutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L39BA [auth Cl]50Drosophila melanogasterMutation(s): 0 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L4CA [auth CC]392Drosophila melanogasterMutation(s): 0 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-60S ribosomal protein L40DA [auth Cm]52Drosophila melanogasterMutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41EA [auth Cn]25Drosophila melanogasterMutation(s): 0 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L37aFA [auth Cp]91Drosophila melanogasterMutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
TA01007pGA [auth Co]104Drosophila melanogasterMutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L11HA [auth CJ]182Drosophila melanogasterMutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L9IA [auth CH]190Drosophila melanogasterMutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L6, isoform AJA [auth CE]228Drosophila melanogasterMutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7aKA [auth CG]241Drosophila melanogasterMutation(s): 0 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein subunit beta-like proteinOA [auth Ag]318Drosophila melanogasterMutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S20PA [auth AU]102Drosophila melanogasterMutation(s): 0 
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S14aQA [auth AO]127Drosophila melanogasterMutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S23RA [auth AX]143Drosophila melanogasterMutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12SA [auth AM]119Drosophila melanogasterMutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S29TA [auth Ad]52Drosophila melanogasterMutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S13UA [auth AN]150Drosophila melanogasterMutation(s): 0 
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11VA [auth AL]155Drosophila melanogasterMutation(s): 0 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S17WA [auth AR]120Drosophila melanogasterMutation(s): 0 
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MoleculeChains Sequence LengthOrganismDetailsImage
GEO07301p1XA [auth AP]124Drosophila melanogasterMutation(s): 0 
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3aYA [auth AB]220Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein SAZA [auth AA]218Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S21AB [auth AV]82Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24BB [auth AY]126Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25CB [auth AZ]74Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S26DB [auth Aa]107Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27EB [auth Ab]84Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3FB [auth AD]227Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S30GB [auth Ae]58Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-40S ribosomal protein S27aHB [auth Af]80Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S9IB [auth AJ]181Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S4JB [auth AE]261Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S2KB [auth AC]227Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6LB [auth AG]231Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for P29327 (Drosophila melanogaster)
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7MB [auth AH]194Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8NB [auth AI]207Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S16OB [auth AQ]148Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for Q9W237 (Drosophila melanogaster)
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10a-2PB [auth Cz]217Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15AaSB [auth AW]129Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for P48149 (Drosophila melanogaster)
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S19aTB [auth AT]126Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for P39018 (Drosophila melanogaster)
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S10bUB [auth AK]90Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5bVB [auth AF]189Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S28WB [auth Ac]62Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L22XB [auth CU]99Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
Probable 60S ribosomal protein L37-AYB [auth Cj]87Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L24ZB [auth CW]60Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L34AC [auth Cg]103Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L31BC [auth Cd]107Drosophila melanogasterMutation(s): 0 
UniProt
Find proteins for Q9V597 (Drosophila melanogaster)
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Entity ID: 81
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18CC [auth AS]136Drosophila melanogasterMutation(s): 0 
UniProt
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Entity ID: 38
MoleculeChains LengthOrganismImage
2S ribosomal RNALA [auth A9]30Drosophila melanogaster
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Entity ID: 39
MoleculeChains LengthOrganismImage
5S ribosomal RNAMA [auth A7]120Drosophila melanogaster
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Entity ID: 40
MoleculeChains LengthOrganismImage
5.8S ribosomal RNANA [auth A8]123Drosophila melanogaster
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Entity ID: 69
MoleculeChains LengthOrganismImage
28S ribosomal RNAQB [auth A5]3,703Drosophila melanogaster
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Entity ID: 70
MoleculeChains LengthOrganismImage
18S ribosomal RNARB [auth B2]1,936Drosophila melanogaster
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/S007407/1
Wellcome TrustUnited Kingdom108466/Z/15/Z

Revision History  (Full details and data files)

  • Version 1.0: 2021-07-28
    Type: Initial release
  • Version 1.1: 2021-08-04
    Changes: Database references
  • Version 1.2: 2022-12-21
    Changes: Database references