7Q0P

Structure of the Candida albicans 80S ribosome in complex with anisomycin

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.77 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

E-site drug specificity of the human pathogen Candida albicans ribosome.

Zgadzay, Y., Kolosova, O., Stetsenko, A., Wu, C., Bruchlen, D., Usachev, K., Validov, S., Jenner, L., Rogachev, A., Yusupova, G., Sachs, M.S., Guskov, A., Yusupov, M.

(2022) Sci Adv 8: eabn1062-eabn1062

  • DOI: https://doi.org/10.1126/sciadv.abn1062
  • Primary Citation of Related Structures:  
    7PZY, 7Q08, 7Q0F, 7Q0P, 7Q0R

  • PubMed Abstract: 

    Candida albicans is a widespread commensal fungus with substantial pathogenic potential and steadily increasing resistance to current antifungal drugs. It is known to be resistant to cycloheximide (CHX) that binds to the E-transfer RNA binding site of the ribosome. Because of lack of structural information, it is neither possible to understand the nature of the resistance nor to develop novel inhibitors. To overcome this issue, we determined the structure of the vacant C. albicans 80 S ribosome at 2.3 angstroms and its complexes with bound inhibitors at resolutions better than 2.9 angstroms using cryo-electron microscopy. Our structures reveal how a change in a conserved amino acid in ribosomal protein eL42 explains CHX resistance in C. albicans and forms a basis for further antifungal drug development.

    • Organizational Affiliation: 

    Department of Integrated Structural Biology, Institute of Genetics and Molecular and Cellular Biology, University of Strasbourg, Illkirch, France.


Macromolecules

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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L2AE [auth j]254Candida albicans SC5314Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L3F [auth k]389Candida albicans SC5314Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L4BG [auth l]363Candida albicans SC5314Mutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L5H [auth m]298Candida albicans SC5314Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L6I [auth n]176Candida albicans SC5314Mutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L7AJ [auth o]241Candida albicans SC5314Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L8K [auth p]262Candida albicans SC5314Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L9BL [auth q]191Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L10M [auth r]220Candida albicans SC5314Mutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L11BN [auth s]174Candida albicans SC5314Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13O [auth t]202Candida albicans SC5314Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L14BP [auth u]131Candida albicans SC5314Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L15Q [auth v]204Candida albicans SC5314Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L16AR [auth w]200Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L17BS [auth x]185Candida albicans SC5314Mutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L18AT [auth y]186Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PK43 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L19U [auth z]190Candida albicans SC5314Mutation(s): 0 
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Find proteins for A0A1D8PK40 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L20V [auth 0]172Candida albicans SC5314Mutation(s): 0 
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Find proteins for A0A1D8PLC9 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L21AW [auth 2]160Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L22BX [auth 5]124Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PM41 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L23BY [auth 6]137Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L24AZ [auth 7]155Candida albicans SC5314Mutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L25AA [auth 8]142Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L26BBA [auth 9]127Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27CA [auth AA]136Candida albicans SC5314Mutation(s): 0 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L28DA [auth AB]149Candida albicans SC5314Mutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29EA [auth AC]63Candida albicans SC5314Mutation(s): 0 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L30FA [auth AD]106Candida albicans SC5314Mutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L31BGA [auth AE]112Candida albicans SC5314Mutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L32HA [auth AF]131Candida albicans SC5314Mutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L33AIA [auth AG]107Candida albicans SC5314Mutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L34BJA [auth AH]122Candida albicans SC5314Mutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L35AKA [auth AI]120Candida albicans SC5314Mutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36LA [auth AJ]99Candida albicans SC5314Mutation(s): 0 
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Find proteins for A0A1D8PH21 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L37MA [auth AK]90Candida albicans SC5314Mutation(s): 0 
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Find proteins for A0A1D8PF45 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L38NA [auth AL]78Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PG16 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L39OA [auth AM]51Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
Rpl40bpPA [auth AN]52Candida albicans SC5314Mutation(s): 0 
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Find proteins for A0A1D8PL68 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41QA [auth AO]25Candida albicans SC5314Mutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L42ARA [auth AP]106Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PEV4 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 60S subunit protein L43ASA [auth AQ]92Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PP14 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
HABP4_PAI-RBP1 domain-containing proteinTA [auth i]267Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PK71 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S0VA [auth B]261Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S1WA [auth C]256Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S2XA [auth D]249Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S3YA [auth E]251Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S4ZA [auth F]262Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S5AB [auth G]225Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6BB [auth H]236Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PL99 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7CB [auth I]186Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8DB [auth J]206Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S9BEB [auth K]189Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S10AFB [auth L]118Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S11AGB [auth M]155Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12HB [auth N]143Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S13IB [auth O]151Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S14BJB [auth P]132Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S15KB [auth Q]142Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PK22 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S16ALB [auth R]142Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S17BMB [auth S]137Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S18BNB [auth T]145Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S19AOB [auth U]145Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PK61 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S20PB [auth V]119Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for Q5A389 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S21QB [auth W]87Candida albicans SC5314Mutation(s): 0 
UniProt
Find proteins for A0A1D8PCG7 (Candida albicans (strain SC5314 / ATCC MYA-2876))
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S22-BRB [auth X]130Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S23BSB [auth Y]145Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24TB [auth Z]135Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25UB [auth a]105Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S26VB [auth b]119Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27WB [auth c]82Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S28BXB [auth d]67Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal 40S subunit protein S29AYB [auth e]56Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S30ZB [auth f]63Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-ribosomal 40S subunit protein S31 fusion proteinAC [auth g]193Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein subunit beta-like proteinBC [auth h]317Candida albicans SC5314Mutation(s): 0 
UniProt
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Entity ID: 1
MoleculeChains LengthOrganismImage
25S ribosomal RNAA [auth 1]3,359Candida albicans SC5314
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Entity ID: 2
MoleculeChains LengthOrganismImage
5S ribosomal RNAB [auth 3]121Candida albicans SC5314
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Entity ID: 3
MoleculeChains LengthOrganismImage
5.8S ribosomal RNAC [auth 4]158Candida albicans SC5314
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Entity ID: 4
MoleculeChains LengthOrganismImage
Mixture of endogenous E-tRNAD [auth 10]77Candida albicans SC5314
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Entity ID: 47
MoleculeChains LengthOrganismImage
18S ribosomal RNAUA [auth A]1,787Candida albicans SC5314
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Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ANM (Subject of Investigation/LOI)
Query on ANM
Download Ideal Coordinates CCD File 
EC [auth 1]ANISOMYCIN
C14 H19 N O4
YKJYKKNCCRKFSL-RDBSUJKOSA-N
SPD
Query on SPD
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CC [auth 1],
DC [auth 1]		SPERMIDINE
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
ZN
Query on ZN
Download Ideal Coordinates CCD File 
FC [auth AK]
GC [auth AN]
HC [auth AP]
IC [auth AQ]
JC [auth b]
FC [auth AK],
GC [auth AN],
HC [auth AP],
IC [auth AQ],
JC [auth b],
KC [auth c],
LC [auth e],
MC [auth g]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MLZ
Query on MLZ		Y [auth 6]L-PEPTIDE LINKINGC7 H16 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.77 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Russian Science FoundationFrance20-65-47031
Russian Science FoundationFrance20-64-47041
Foundation for Medical Research (France)FranceFDT202106012811
Foundation for Medical Research (France)FranceDEQ20181039600
Foundation for Medical Research (France)FranceDBF20160635745

Revision History  (Full details and data files)

  • Version 1.0: 2022-05-18
    Type: Initial release
  • Version 1.1: 2022-06-08
    Changes: Database references