8TPU

Subtomogram averaged consensus structure of the malarial 80S ribosome in Plasmodium falciparum-infected human erythrocytes

  • Classification: RIBOSOME
  • Organism(s): Plasmodium falciparum 3D7
  • Mutation(s): No 

  • Deposited: 2023-08-05 Released: 2024-08-14 
  • Deposition Author(s): Anton, L., Cheng, W., Zhu, X., Ho, C.M.
  • Funding Organization(s): National Institutes of Health/Office of the Director, Swiss National Science Foundation, Human Frontier Science Program (HFSP)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history. 


Literature

Divergent translational landscape reflects adaptation to biased codon usage in malaria parasites

Anton, L., Cheng, W., Haile, M., Cobb, D.W., Zhu, X., Han, L., Li, E., Nair, A., Lee, C.L., Ho, C.M.

To be published.

Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24A [auth S1]133Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25B [auth S2]105Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8ILN8 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S26C [auth S3]107Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O96258 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27D [auth S4]82Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IEN2 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41E [auth S5]58Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein eS30F [auth S6]43Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O96269 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3aI [auth SB]262Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O97313 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein SAJ [auth SC]263Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IJD4 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3K [auth SD]221Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S9, putativeL [auth SE]189Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S4M [auth SF]261Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IIU8 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5N [auth SG]272Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IL02 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6O [auth SH]306Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5, putativeP [auth SI]195Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7Q [auth SJ]194Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IET7 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15A, putativeR [auth SK]130Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O77395 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8S [auth SL]218Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IM10 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S16T [auth SM]144Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for A0A0L7M7C8 (Plasmodium falciparum (isolate Dd2))
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S20e, putativeU [auth SN]118Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IK02 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S10, putativeV [auth SO]137Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IBQ5 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11W [auth SP]151Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for A0A5K1K925 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S23, putativeX [auth SQ]145Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O97248 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12Y [auth SR]141Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O97249 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18, putativeZ [auth SS]156Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IIA2 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S29, putativeAA [auth ST]54Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15BA [auth SU]151Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IDB0 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11, putativeCA [auth SV]161Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O77381 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S17, putativeDA [auth SW]137Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8I502 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S19EA [auth SX]145Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C0H5C2 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S19FA [auth SY]170Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S21GA [auth SZ]82Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IHS5 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13KA [auth AL]215Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IAX6 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27LA [auth A1]146Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L28MA [auth A2]126Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29NA [auth A4]67Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C6S3J6 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L30e, putativeOA [auth A6]107Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L31PA [auth A7]120Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8I463 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L14, putativeQA [auth AN]165Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8ILE8 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L32RA [auth A8]130Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L35ae, putativeSA [auth A9]139Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L34TA [auth Aa]149Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36UA [auth Ab]112Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8I713 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L38VA [auth Ad]87Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8II62 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L39WA [auth Ae]51Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C0H4H3 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-60S ribosomal protein L40XA [auth Af]128Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8ID50 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L15YA [auth AP]203Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein eL43ZA [auth Ah]95Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein eL42AB [auth Ai]103Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L6, putativeBB [auth AI]221Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for A0A5K1K8V8 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7aCB [auth AJ]283Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L37DB [auth Ac]92Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13, putativeEB [auth AK]202Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23, putativeFB [auth AM]139Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IE09 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18-2, putativeGB [auth AS]187Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C0H5G3 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27a, putativeHB [auth AO]148Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C6KT23 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10, putativeIB [auth AQ]219Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8ILV2 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L5, putativeJB [auth AR]294Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L17, putativeKB [auth AW]173Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23LB [auth AY]190Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IE82 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L19MB [auth AT]182Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C6KSY6 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L26, putativeNB [auth AZ]126Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O77364 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L35, putativeOB [auth A3]124Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IIB4 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7, putativePB [auth A5]257Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for O97250 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L2QB [auth AD]260Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8I3T9 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L3RB [auth AE]386Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IJC6 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L4SB [auth AF]411Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8I431 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L11a, putativeTB [auth AG]173Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IBQ6 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18aUB [auth AU]184Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IDS6 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L6, putativeVB [auth AH]190Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IE85 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L21WB [auth AV]162Plasmodium falciparum 3D7Mutation(s): 0 
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41XB [auth Ag]39Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for C6S3G4 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L22, putativeYB [auth AX]139Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IB51 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L24, putativeZB [auth A0]162Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IEM3 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
Receptor for activated c kinaseAC [auth S8]323Plasmodium falciparum 3D7Mutation(s): 0 
UniProt
Find proteins for Q8IBA0 (Plasmodium falciparum (isolate 3D7))
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Entity ID: 7
MoleculeChains LengthOrganismImage
60S ribosomal protein L24, putativeG [auth S7]74Plasmodium falciparum 3D7
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Entity ID: 8
MoleculeChains LengthOrganismImage
18S ribosomal RNAH [auth SA]2,087Plasmodium falciparum 3D7
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Entity ID: 34
MoleculeChains LengthOrganismImage
28S ribosomal RNAHA [auth AA]3,788Plasmodium falciparum 3D7
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Entity ID: 35
MoleculeChains LengthOrganismImage
5.8S ribosomal RNAIA [auth AC]159Plasmodium falciparum 3D7
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Entity ID: 36
MoleculeChains LengthOrganismImage
5S ribosomal RNAJA [auth AB]119Plasmodium falciparum 3D7
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/Office of the DirectorUnited StatesDP5OD029613
Swiss National Science FoundationSwitzerland--
Human Frontier Science Program (HFSP)France--

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-14
    Type: Initial release