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- PDB-9j9h: High-resolution cryo-EM structure of the Plasmodium falciparum 80... -

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Basic information

Entry
Database: PDB / ID: 9j9h
TitleHigh-resolution cryo-EM structure of the Plasmodium falciparum 80S ribosome bound to RACK1 and E-tRNA
Components
  • (40S ribosomal protein ...) x 27
  • (60S ribosomal protein ...) x 36
  • (Large ribosomal subunit protein ...) x 3
  • (Ribosomal protein ...) x 3
  • (Small ribosomal subunit protein ...) x 4
  • 18S ribosomal RNA
  • 28S ribosomal RNA
  • 5.8S ribosomal RNA
  • 5S ribosomal RNA
  • Receptor for activated c kinase
  • Ubiquitin-60S ribosomal protein L40
  • tRNA
KeywordsRIBOSOME / cryo-EM / Plasmodium falciparum
Function / homology
Function and homology information


RMTs methylate histone arginines / Major pathway of rRNA processing in the nucleolus and cytosol / Protein methylation / Translesion synthesis by REV1 / Recognition of DNA damage by PCNA-containing replication complex / Translesion Synthesis by POLH / Translesion synthesis by POLK / Translesion synthesis by POLI / Josephin domain DUBs / Metalloprotease DUBs ...RMTs methylate histone arginines / Major pathway of rRNA processing in the nucleolus and cytosol / Protein methylation / Translesion synthesis by REV1 / Recognition of DNA damage by PCNA-containing replication complex / Translesion Synthesis by POLH / Translesion synthesis by POLK / Translesion synthesis by POLI / Josephin domain DUBs / Metalloprotease DUBs / DNA Damage Recognition in GG-NER / Formation of Incision Complex in GG-NER / Dual Incision in GG-NER / Formation of TC-NER Pre-Incision Complex / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1 / ER Quality Control Compartment (ERQC) / Iron uptake and transport / L13a-mediated translational silencing of Ceruloplasmin expression / SRP-dependent cotranslational protein targeting to membrane / Translation initiation complex formation / Formation of a pool of free 40S subunits / Formation of the ternary complex, and subsequently, the 43S complex / Ribosomal scanning and start codon recognition / GTP hydrolysis and joining of the 60S ribosomal subunit / Negative regulators of DDX58/IFIH1 signaling / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / PINK1-PRKN Mediated Mitophagy / Synthesis of active ubiquitin: roles of E1 and E2 enzymes / Aggrephagy / Orc1 removal from chromatin / CDK-mediated phosphorylation and removal of Cdc6 / FBXL7 down-regulates AURKA during mitotic entry and in early mitosis / KEAP1-NFE2L2 pathway / UCH proteinases / Ub-specific processing proteases / Neddylation / Antigen processing: Ubiquitination & Proteasome degradation / MAPK6/MAPK4 signaling / ABC-family proteins mediated transport / AUF1 (hnRNP D0) binds and destabilizes mRNA / protein neddylation / negative regulation of translational frameshifting / regulation of proteolysis / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / protein-RNA complex assembly / maturation of LSU-rRNA / translation regulator activity / cytosolic ribosome / rescue of stalled ribosome / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / protein kinase C binding / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / chloroplast / maturation of SSU-rRNA / small-subunit processome / maintenance of translational fidelity / modification-dependent protein catabolic process / protein tag activity / rRNA processing / kinase activity / ribosome biogenesis / large ribosomal subunit / ribosome binding / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / ribosomal large subunit assembly / cytosolic small ribosomal subunit / ubiquitin-dependent protein catabolic process / large ribosomal subunit rRNA binding / small ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / negative regulation of translation / rRNA binding / protein ubiquitination / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / mRNA binding / ubiquitin protein ligase binding / nucleolus / mitochondrion / RNA binding / zinc ion binding / nucleus / cytosol / cytoplasm
Similarity search - Function
: / Ribosomal L28e/Mak16 / Ribosomal L28e protein family / : / Ribosomal protein S26e signature. / Ribosomal protein L41 / Ribosomal protein L41 / Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e ...: / Ribosomal L28e/Mak16 / Ribosomal L28e protein family / : / Ribosomal protein S26e signature. / Ribosomal protein L41 / Ribosomal protein L41 / Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e / : / Ribosomal protein S12e signature. / Ribosomal protein S12e / Ribosomal protein L29e / Ribosomal L29e protein family / Ribosomal protein S19e, conserved site / Ribosomal protein S19e signature. / Small (40S) ribosomal subunit Asc1/RACK1 / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein L13e, conserved site / Ribosomal protein L13e signature. / Ribosomal protein S2, eukaryotic / S27a-like superfamily / Ribosomal protein L22e / Ribosomal protein L22e superfamily / Ribosomal L22e protein family / Ribosomal protein L10e, conserved site / Ribosomal protein L10e signature. / Ribosomal protein L10e / 40S Ribosomal protein S10 / Ribosomal protein L38e / Ribosomal protein L38e superfamily / Ribosomal L38e protein family / Ribosomal protein L44e signature. / : / Plectin/S10, N-terminal / Plectin/S10 domain / Ribosomal protein S10, eukaryotic/archaeal / Ribosomal protein L19, eukaryotic / Ribosomal protein S8e subdomain, eukaryotes / Ribosomal protein L13e / Ribosomal protein L13e / 60S ribosomal protein L18a/ L20, eukaryotes / Ribosomal protein S25 / S25 ribosomal protein / Ribosomal protein S27a / Ribosomal protein S17e, conserved site / : / Ribosomal protein S27a / Ribosomal protein S17e signature. / Ribosomal protein S27a / Ribosomal protein L44e / Ribosomal protein S30 / Ribosomal protein L44 / Ribosomal protein S30 / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein L34e, conserved site / Ribosomal protein L34e signature. / Ribosomal protein L5 eukaryotic, C-terminal / Ribosomal L18 C-terminal region / Ribosomal protein L30e signature 1. / 50S ribosomal protein L18Ae/60S ribosomal protein L20 and L18a / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / 40S ribosomal protein S4, C-terminal domain / Ribosomal L40e family / 40S ribosomal protein S4 C-terminus / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein S4e signature. / Ribosomal protein 50S-L18Ae/60S-L20/60S-L18A / Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A / Ribosomal protein L23/L25, N-terminal / Ribosomal protein L23, N-terminal domain / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal_L40e / Ribosomal protein L40e / Ribosomal protein L40e superfamily / Eukaryotic Ribosomal Protein L27, KOW domain / Ribosomal protein 60S L18 and 50S L18e / Ribosomal protein L18/L18-A/B/e, conserved site / Ribosomal protein L18e signature. / Ribosomal protein L30e signature 2. / Ribosomal protein L27e / Ribosomal protein S19e / Ribosomal protein L27e superfamily / Ribosomal protein S19e / Ribosomal L27e protein family / Ribosomal protein L36e signature. / Ribosomal_S19e / Ribosomal protein L30e, conserved site / Ribosomal protein S7e / Ribosomal protein S7e / Ribosomal protein L39e, conserved site / Ribosomal protein L39e signature. / 40S ribosomal protein S1/3, eukaryotes / Ribosomal protein S19A/S15e / : / Ribosomal protein L6e
Similarity search - Domain/homology
: / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / 60S ribosomal protein L6, putative / 40S ribosomal protein S11 / Ribosomal protein L15 ...: / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / 60S ribosomal protein L6, putative / 40S ribosomal protein S11 / Ribosomal protein L15 / 60S ribosomal protein L39 / 40S ribosomal protein S29, putative / Ribosomal protein L37 / 40S ribosomal protein S19 / 60S ribosomal protein L18-2, putative / 60S ribosomal protein L19 / 60S ribosomal protein L27a, putative / 60S ribosomal protein L41 / 60S ribosomal protein L29 / 60S ribosomal protein L26, putative / 40S ribosomal protein S11, putative / 40S ribosomal protein S15A, putative / Large ribosomal subunit protein eL43 / 40S ribosomal protein S26 / Small ribosomal subunit protein eS30 / Large ribosomal subunit protein eL42 / 40S ribosomal protein S23, putative / Small ribosomal subunit protein eS12 / 60S ribosomal protein L7, putative / Small ribosomal subunit protein eS1 / 60S ribosomal protein L32 / 40S ribosomal protein S9, putative / 40S ribosomal protein S24 / 60S ribosomal protein L2 / 60S ribosomal protein L4 / 60S ribosomal protein L31 / 40S ribosomal protein S17, putative / 60S ribosomal protein L36 / 40S ribosomal protein S16, putative / 60S ribosomal protein L13 / Large ribosomal subunit protein eL22 / Receptor for activated c kinase / 40S ribosomal protein S5, putative / 40S ribosomal protein S10, putative / 60S ribosomal protein L11a, putative / 60S ribosomal protein L34 / Ubiquitin-60S ribosomal protein L40 / 40S ribosomal protein S15 / 60S ribosomal protein L17, putative / 40S ribosomal protein S6 / 60S ribosomal protein L18a / 60S ribosomal protein L23, putative / 60S ribosomal protein L23 / 60S ribosomal protein L6, putative / 60S ribosomal protein L24, putative / 40S ribosomal protein S27 / 40S ribosomal protein S7 / 40S ribosomal protein S19 / 40S ribosomal protein S21 / 60S ribosomal protein L35ae, putative / 60S ribosomal protein L28 / 60S ribosomal protein L38 / 40S ribosomal protein S18, putative / 60S ribosomal protein L35, putative / 40S ribosomal protein S4 / 60S ribosomal protein L3 / Small ribosomal subunit protein uS2 / 60S ribosomal protein L30e, putative / 60S ribosomal protein L13, putative / 40S ribosomal protein S20e, putative / 40S ribosomal protein S3 / 40S ribosomal protein S28e, putative / 60S ribosomal protein L27 / Small ribosomal subunit protein uS5 / 60S ribosomal protein L14, putative / 60S ribosomal protein L21 / 60S ribosomal protein L7a / 60S ribosomal protein L5, putative / 40S ribosomal protein S25 / 60S ribosomal protein L10, putative / 40S ribosomal protein S8 / Ribosomal protein S27a, putative
Similarity search - Component
Biological speciesPlasmodium falciparum 3D7 (eukaryote)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.45 Å
AuthorsYan, X.F. / Gao, Y.G.
Funding support Singapore, 2items
OrganizationGrant numberCountry
Ministry of Education (MoE, Singapore)MOE-T2EP30122-0019 Singapore
Ministry of Education (MoE, Singapore)RG108/20 Singapore
CitationJournal: Structure / Year: 2025
Title: Antimalarial drug artemisinin stabilizes PfRACK1 binding to the ribosome
Authors: Go, K.D. / Yan, X.F. / Wirjanata, G. / Ero, R. / Lescar, J. / Bozdech, Z. / Gao, Y.G.
History
DepositionAug 22, 2024Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Jun 4, 2025Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: 28S ribosomal RNA
0: 60S ribosomal protein L24, putative
q: 40S ribosomal protein S6
AQ: tRNA
B: 5S ribosomal RNA
1: 60S ribosomal protein L27
r: 40S ribosomal protein S5, putative
AR: Receptor for activated c kinase
C: 5.8S ribosomal RNA
2: 60S ribosomal protein L28
s: 40S ribosomal protein S7
D: 60S ribosomal protein L2
3: 60S ribosomal protein L35, putative
t: 40S ribosomal protein S15A, putative
E: 60S ribosomal protein L3
4: 60S ribosomal protein L29
u: 40S ribosomal protein S8
F: 60S ribosomal protein L4
5: 60S ribosomal protein L7, putative
v: 40S ribosomal protein S16, putative
G: 60S ribosomal protein L11a, putative
6: 60S ribosomal protein L30e, putative
w: 40S ribosomal protein S20e, putative
H: 60S ribosomal protein L6, putative
7: 60S ribosomal protein L31
x: 40S ribosomal protein S10, putative
I: 60S ribosomal protein L6, putative
8: 60S ribosomal protein L32
y: 40S ribosomal protein S11
J: 60S ribosomal protein L7a
9: 60S ribosomal protein L35ae, putative
z: 40S ribosomal protein S23, putative
K: 60S ribosomal protein L13, putative
a: 60S ribosomal protein L34
AA: Small ribosomal subunit protein eS12
L: 60S ribosomal protein L13
b: 60S ribosomal protein L36
AB: 40S ribosomal protein S18, putative
M: 60S ribosomal protein L23, putative
c: Ribosomal protein L37
AC: 40S ribosomal protein S29, putative
N: 60S ribosomal protein L14, putative
d: 60S ribosomal protein L38
AD: 40S ribosomal protein S15
O: 60S ribosomal protein L27a, putative
e: 60S ribosomal protein L39
AE: 40S ribosomal protein S11, putative
P: Ribosomal protein L15
f: Ubiquitin-60S ribosomal protein L40
AF: 40S ribosomal protein S17, putative
Q: 60S ribosomal protein L10, putative
g: 60S ribosomal protein L41
AG: 40S ribosomal protein S19
R: 60S ribosomal protein L5, putative
h: Large ribosomal subunit protein eL43
AH: 40S ribosomal protein S19
S: 60S ribosomal protein L18-2, putative
i: Large ribosomal subunit protein eL42
AI: 40S ribosomal protein S21
T: 60S ribosomal protein L19
j: 18S ribosomal RNA
AJ: 40S ribosomal protein S24
U: 60S ribosomal protein L18a
k: Small ribosomal subunit protein eS1
AK: 40S ribosomal protein S25
V: 60S ribosomal protein L21
l: Small ribosomal subunit protein uS2
AL: 40S ribosomal protein S26
W: 60S ribosomal protein L17, putative
m: 40S ribosomal protein S3
AM: 40S ribosomal protein S27
X: Large ribosomal subunit protein eL22
n: 40S ribosomal protein S9, putative
AN: 40S ribosomal protein S28e, putative
Y: 60S ribosomal protein L23
o: 40S ribosomal protein S4
AO: Small ribosomal subunit protein eS30
Z: 60S ribosomal protein L26, putative
p: 40S ribosomal protein S5
AP: Ribosomal protein S27a, putative
hetero molecules


Theoretical massNumber of molelcules
Total (without water)3,452,215340
Polymers3,445,64980
Non-polymers6,566260
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

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RNA chain , 5 types, 5 molecules AAQBCj

#1: RNA chain 28S ribosomal RNA


Mass: 1216212.125 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote)
#4: RNA chain tRNA


Mass: 23774.059 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: GenBank: 1016052399
#5: RNA chain 5S ribosomal RNA


Mass: 38410.859 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote)
#9: RNA chain 5.8S ribosomal RNA


Mass: 51206.461 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: GenBank: 1162436939
#61: RNA chain 18S ribosomal RNA


Mass: 671337.500 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: GenBank: 1013064403

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60S ribosomal protein ... , 36 types, 36 molecules 012D3E4F5G6H7I8J9KaLbMNdOeQgRS...

#2: Protein 60S ribosomal protein L24, putative


Mass: 19295.930 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IEM3
#6: Protein 60S ribosomal protein L27


Mass: 16785.180 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IKM5
#10: Protein 60S ribosomal protein L28


Mass: 14437.823 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IHU0
#12: Protein 60S ribosomal protein L2


Mass: 28064.998 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I3T9
#13: Protein 60S ribosomal protein L35, putative


Mass: 14787.824 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IIB4
#15: Protein 60S ribosomal protein L3


Mass: 44318.180 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IJC6
#16: Protein 60S ribosomal protein L29


Mass: 8041.588 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C6S3J6
#18: Protein 60S ribosomal protein L4


Mass: 46311.688 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I431
#19: Protein 60S ribosomal protein L7, putative


Mass: 30593.184 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O97250
#21: Protein 60S ribosomal protein L11a, putative


Mass: 20268.666 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IBQ6
#22: Protein 60S ribosomal protein L30e, putative


Mass: 11794.760 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IJK8
#24: Protein 60S ribosomal protein L6, putative


Mass: 21638.562 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IE85
#25: Protein 60S ribosomal protein L31


Mass: 14099.854 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I463
#27: Protein 60S ribosomal protein L6, putative


Mass: 25587.623 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: A0A5K1K8V8
#28: Protein 60S ribosomal protein L32


Mass: 15565.751 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I3B0
#30: Protein 60S ribosomal protein L7a


Mass: 32760.455 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ILL2
#31: Protein 60S ribosomal protein L35ae, putative


Mass: 16306.425 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IHT9
#33: Protein 60S ribosomal protein L13, putative


Mass: 23805.344 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IJZ7
#34: Protein 60S ribosomal protein L34


Mass: 17406.967 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IBY4
#36: Protein 60S ribosomal protein L13


Mass: 25508.193 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IAX6
#37: Protein 60S ribosomal protein L36


Mass: 12825.440 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I713
#39: Protein 60S ribosomal protein L23, putative


Mass: 15015.713 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IE09
#42: Protein 60S ribosomal protein L14, putative


Mass: 19340.373 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ILE8
#43: Protein 60S ribosomal protein L38


Mass: 10341.729 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8II62
#45: Protein 60S ribosomal protein L27a, putative


Mass: 16765.834 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C6KT23
#46: Protein 60S ribosomal protein L39


Mass: 6540.912 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C0H4H3
#51: Protein 60S ribosomal protein L10, putative


Mass: 25265.480 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ILV2
#52: Protein/peptide 60S ribosomal protein L41


Mass: 5108.310 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C6S3G4
#54: Protein 60S ribosomal protein L5, putative


Mass: 34067.352 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ILL3
#57: Protein 60S ribosomal protein L18-2, putative


Mass: 21508.783 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C0H5G3
#60: Protein 60S ribosomal protein L19


Mass: 21641.096 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C6KSY6
#63: Protein 60S ribosomal protein L18a


Mass: 21793.611 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IDS6
#66: Protein 60S ribosomal protein L21


Mass: 18840.244 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ILK3
#69: Protein 60S ribosomal protein L17, putative


Mass: 23469.926 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IDI5
#75: Protein 60S ribosomal protein L23


Mass: 22152.748 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IE82
#78: Protein 60S ribosomal protein L26, putative


Mass: 14855.709 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O77364

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40S ribosomal protein ... , 27 types, 27 molecules qrstuvwxyzABACADAEAFAGAHAIAJAKALmAMnANop

#3: Protein 40S ribosomal protein S6


Mass: 35473.766 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IDR9
#7: Protein 40S ribosomal protein S5, putative


Mass: 21898.484 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IBN5
#11: Protein 40S ribosomal protein S7


Mass: 22524.740 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IET7
#14: Protein 40S ribosomal protein S15A, putative


Mass: 14900.678 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O77395
#17: Protein 40S ribosomal protein S8


Mass: 25105.992 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IM10
#20: Protein 40S ribosomal protein S16, putative


Mass: 16318.242 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IAX5
#23: Protein 40S ribosomal protein S20e, putative


Mass: 13534.918 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IK02
#26: Protein 40S ribosomal protein S10, putative


Mass: 16510.201 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IBQ5
#29: Protein 40S ribosomal protein S11


Mass: 16105.612 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: A0A5K1K925
#32: Protein 40S ribosomal protein S23, putative


Mass: 16166.962 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O97248
#38: Protein 40S ribosomal protein S18, putative


Mass: 17928.947 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IIA2
#41: Protein 40S ribosomal protein S29, putative


Mass: 6430.679 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C0H4K8
#44: Protein 40S ribosomal protein S15


Mass: 17286.469 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IDB0
#47: Protein 40S ribosomal protein S11, putative


Mass: 18801.189 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O77381
#50: Protein 40S ribosomal protein S17, putative


Mass: 16096.985 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I502
#53: Protein 40S ribosomal protein S19


Mass: 16800.764 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C0H5C2
#56: Protein 40S ribosomal protein S19


Mass: 19757.920 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IFP2
#59: Protein 40S ribosomal protein S21


Mass: 9157.478 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IHS5
#62: Protein 40S ribosomal protein S24


Mass: 15431.478 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I3R6
#65: Protein 40S ribosomal protein S25


Mass: 11691.931 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ILN8
#68: Protein 40S ribosomal protein S26


Mass: 12539.681 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O96258
#70: Protein 40S ribosomal protein S3


Mass: 24709.908 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IKH8
#71: Protein 40S ribosomal protein S27


Mass: 9154.856 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IEN2
#73: Protein 40S ribosomal protein S9, putative


Mass: 22172.076 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8I3R0
#74: Protein 40S ribosomal protein S28e, putative


Mass: 7508.800 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IKL9
#76: Protein 40S ribosomal protein S4


Mass: 29830.330 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IIU8
#79: Protein 40S ribosomal protein S5


Mass: 30008.768 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IL02

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Protein , 2 types, 2 molecules ARf

#8: Protein Receptor for activated c kinase


Mass: 35726.293 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IBA0
#49: Protein Ubiquitin-60S ribosomal protein L40


Mass: 14645.169 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8ID50

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Small ribosomal subunit protein ... , 4 types, 4 molecules AAklAO

#35: Protein Small ribosomal subunit protein eS12 / 40S ribosomal protein S12


Mass: 15414.444 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O97249
#64: Protein Small ribosomal subunit protein eS1 / 40S ribosomal protein S3a


Mass: 30111.678 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O97313
#67: Protein Small ribosomal subunit protein uS2 / 40S ribosomal protein S2 / 40S ribosomal protein SA


Mass: 29891.182 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IJD4
#77: Protein Small ribosomal subunit protein eS30 / 40S ribosomal protein S30


Mass: 6508.725 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O96269

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Ribosomal protein ... , 3 types, 3 molecules cPAP

#40: Protein Ribosomal protein L37


Mass: 10571.592 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C0H4L5
#48: Protein Ribosomal protein L15


Mass: 24197.660 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: C0H4A6
#80: Protein Ribosomal protein S27a, putative


Mass: 17437.662 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IM64

-
Large ribosomal subunit protein ... , 3 types, 3 molecules hiX

#55: Protein Large ribosomal subunit protein eL43 / 60S ribosomal protein L37a


Mass: 10826.083 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O96184
#58: Protein Large ribosomal subunit protein eL42 / 60S ribosomal protein L44


Mass: 12194.902 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: O97231
#72: Protein Large ribosomal subunit protein eL22 / 60S ribosomal protein L22


Mass: 16422.930 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Plasmodium falciparum 3D7 (eukaryote) / References: UniProt: Q8IB51

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Non-polymers , 2 types, 260 molecules

#81: Chemical...
ChemComp-MG / MAGNESIUM ION


Mass: 24.305 Da / Num. of mol.: 254 / Source method: obtained synthetically / Formula: Mg
#82: Chemical
ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 6 / Source method: obtained synthetically / Formula: Zn

-
Details

Has ligand of interestN
Has protein modificationY

-
Experimental details

-
Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

-
Sample preparation

ComponentName: Plasmodium falciparum cytoplasmic ribosomes / Type: RIBOSOME / Entity ID: #1-#80 / Source: NATURAL
Source (natural)Organism: Plasmodium falciparum 3D7 (eukaryote)
Buffer solutionpH: 7.4
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

-
Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: OTHER
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 1500 nm / Nominal defocus min: 500 nm
Image recordingElectron dose: 60 e/Å2 / Film or detector model: GATAN K3 (6k x 4k)

-
Processing

CTF correctionType: NONE
3D reconstructionResolution: 2.45 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 98057 / Symmetry type: POINT

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