8PJ3

Structure of human 48S translation initiation complex upon transfer of initiator tRNA to eIF5B (48S-3)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report

Currently 8PJ3 does not have a validation slider image.


This is version 1.1 of the entry. See complete history


Literature

Structural basis for translational control by the human 48S initiation complex.

Petrychenko, V.Yi, S.H.Liedtke, D.Peng, B.Z.Rodnina, M.V.Fischer, N.

(2024) Nat Struct Mol Biol 

  • DOI: https://doi.org/10.1038/s41594-024-01378-4
  • Primary Citation of Related Structures:  
    8PJ1, 8PJ2, 8PJ3, 8PJ4, 8PJ5, 8PJ6, 8RG0

  • PubMed Abstract: 

    The selection of an open reading frame (ORF) for translation of eukaryotic mRNA relies on remodeling of the scanning 48S initiation complex into an elongation-ready 80S ribosome. Using cryo-electron microscopy, we visualize the key commitment steps orchestrating 48S remodeling in humans. The mRNA Kozak sequence facilitates mRNA scanning in the 48S open state and stabilizes the 48S closed state by organizing the contacts of eukaryotic initiation factors (eIFs) and ribosomal proteins and by reconfiguring mRNA structure. GTPase-triggered large-scale fluctuations of 48S-bound eIF2 facilitate eIF5B recruitment, transfer of initiator tRNA from eIF2 to eIF5B and the release of eIF5 and eIF2. The 48S-bound multisubunit eIF3 complex controls ribosomal subunit joining by coupling eIF exchange to gradual displacement of the eIF3c N-terminal domain from the intersubunit interface. These findings reveal the structural mechanism of ORF selection in human cells and explain how eIF3 could function in the context of the 80S ribosome.


  • Organizational Affiliation

    Project Group Molecular Machines in Motion, Department of Physical Biochemistry, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 5BA [auth 0]1,220Homo sapiensMutation(s): 0 
EC: 3.6.5.3
UniProt & NIH Common Fund Data Resources
Find proteins for O60841 (Homo sapiens)
Explore O60841 
Go to UniProtKB:  O60841
PHAROS:  O60841
GTEx:  ENSG00000158417 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO60841
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit BB [auth 1]814Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P55884 (Homo sapiens)
Explore P55884 
Go to UniProtKB:  P55884
PHAROS:  P55884
GTEx:  ENSG00000106263 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55884
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit IC [auth 2]325Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q13347 (Homo sapiens)
Explore Q13347 
Go to UniProtKB:  Q13347
PHAROS:  Q13347
GTEx:  ENSG00000084623 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13347
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit KD [auth 3]218Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBQ5 (Homo sapiens)
Explore Q9UBQ5 
Go to UniProtKB:  Q9UBQ5
PHAROS:  Q9UBQ5
GTEx:  ENSG00000178982 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UBQ5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit FE [auth 4]357Homo sapiensMutation(s): 0 
EC: 3.4.19.12
UniProt & NIH Common Fund Data Resources
Find proteins for O00303 (Homo sapiens)
Explore O00303 
Go to UniProtKB:  O00303
PHAROS:  O00303
GTEx:  ENSG00000175390 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO00303
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit LF [auth 5]564Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y262 (Homo sapiens)
Explore Q9Y262 
Go to UniProtKB:  Q9Y262
GTEx:  ENSG00000100129 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y262
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit MG [auth 6]374Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q7L2H7 (Homo sapiens)
Explore Q7L2H7 
Go to UniProtKB:  Q7L2H7
PHAROS:  Q7L2H7
GTEx:  ENSG00000149100 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7L2H7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit HI [auth 8]352Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O15372 (Homo sapiens)
Explore O15372 
Go to UniProtKB:  O15372
PHAROS:  O15372
GTEx:  ENSG00000147677 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO15372
Sequence Annotations
Expand
  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41J [auth 9]25Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62945 (Homo sapiens)
Explore P62945 
Go to UniProtKB:  P62945
PHAROS:  P62945
GTEx:  ENSG00000229117 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62945
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11L [auth B]158Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62280 (Homo sapiens)
Explore P62280 
Go to UniProtKB:  P62280
PHAROS:  P62280
GTEx:  ENSG00000142534 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62280
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S4, X isoformM [auth C]263Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62701 (Homo sapiens)
Explore P62701 
Go to UniProtKB:  P62701
PHAROS:  P62701
GTEx:  ENSG00000198034 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62701
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S9N [auth D]194Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P46781 (Homo sapiens)
Explore P46781 
Go to UniProtKB:  P46781
PHAROS:  P46781
GTEx:  ENSG00000170889 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP46781
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S23O [auth E]143Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62266 (Homo sapiens)
Explore P62266 
Go to UniProtKB:  P62266
PHAROS:  P62266
GTEx:  ENSG00000186468 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62266
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein eS30P [auth F]133Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62861 (Homo sapiens)
Explore P62861 
Go to UniProtKB:  P62861
PHAROS:  P62861
GTEx:  ENSG00000149806 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62861
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7Q [auth G]194Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62081 (Homo sapiens)
Explore P62081 
Go to UniProtKB:  P62081
PHAROS:  P62081
GTEx:  ENSG00000171863 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62081
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27R [auth H]84Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P42677 (Homo sapiens)
Explore P42677 
Go to UniProtKB:  P42677
PHAROS:  P42677
GTEx:  ENSG00000177954 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP42677
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S13S [auth I]151Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62277 (Homo sapiens)
Explore P62277 
Go to UniProtKB:  P62277
PHAROS:  P62277
GTEx:  ENSG00000110700 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62277
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15aT [auth J]130Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62244 (Homo sapiens)
Explore P62244 
Go to UniProtKB:  P62244
PHAROS:  P62244
GTEx:  ENSG00000134419 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62244
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S21U [auth K]83Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P63220 (Homo sapiens)
Explore P63220 
Go to UniProtKB:  P63220
PHAROS:  P63220
GTEx:  ENSG00000171858 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP63220
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S2V [auth L]293Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P15880 (Homo sapiens)
Explore P15880 
Go to UniProtKB:  P15880
PHAROS:  P15880
GTEx:  ENSG00000140988 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15880
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S17W [auth M]135Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P08708 (Homo sapiens)
Explore P08708 
Go to UniProtKB:  P08708
PHAROS:  P08708
GTEx:  ENSG00000182774 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08708
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein SAX [auth N]295Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P08865 (Homo sapiens)
Explore P08865 
Go to UniProtKB:  P08865
PHAROS:  P08865
GTEx:  ENSG00000168028 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08865
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3aY [auth O]264Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P61247 (Homo sapiens)
Explore P61247 
Go to UniProtKB:  P61247
GTEx:  ENSG00000145425 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP61247
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S14Z [auth P]151Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62263 (Homo sapiens)
Explore P62263 
Go to UniProtKB:  P62263
PHAROS:  P62263
GTEx:  ENSG00000164587 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62263
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S26AA [auth Q]115Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62854 (Homo sapiens)
Explore P62854 
Go to UniProtKB:  P62854
PHAROS:  P62854
GTEx:  ENSG00000197728 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62854
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8BA [auth R]208Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62241 (Homo sapiens)
Explore P62241 
Go to UniProtKB:  P62241
PHAROS:  P62241
GTEx:  ENSG00000142937 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62241
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6CA [auth S]249Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62753 (Homo sapiens)
Explore P62753 
Go to UniProtKB:  P62753
PHAROS:  P62753
GTEx:  ENSG00000137154 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62753
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24DA [auth T]133Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62847 (Homo sapiens)
Explore P62847 
Go to UniProtKB:  P62847
PHAROS:  P62847
GTEx:  ENSG00000138326 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62847
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5EA [auth V]204Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P46782 (Homo sapiens)
Explore P46782 
Go to UniProtKB:  P46782
PHAROS:  P46782
GTEx:  ENSG00000083845 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP46782
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S16FA [auth Y]146Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62249 (Homo sapiens)
Explore P62249 
Go to UniProtKB:  P62249
PHAROS:  P62249
GTEx:  ENSG00000105193 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62249
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3GA [auth Z]243Homo sapiensMutation(s): 0 
EC: 4.2.99.18
UniProt & NIH Common Fund Data Resources
Find proteins for P23396 (Homo sapiens)
Explore P23396 
Go to UniProtKB:  P23396
PHAROS:  P23396
GTEx:  ENSG00000149273 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP23396
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S10HA [auth a]165Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P46783 (Homo sapiens)
Explore P46783 
Go to UniProtKB:  P46783
PHAROS:  P46783
GTEx:  ENSG00000124614 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP46783
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15IA [auth b]145Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62841 (Homo sapiens)
Explore P62841 
Go to UniProtKB:  P62841
PHAROS:  P62841
GTEx:  ENSG00000115268 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62841
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
Receptor of activated protein C kinase 1JA [auth c]317Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P63244 (Homo sapiens)
Explore P63244 
Go to UniProtKB:  P63244
PHAROS:  P63244
GTEx:  ENSG00000204628 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP63244
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S19KA [auth d]145Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P39019 (Homo sapiens)
Explore P39019 
Go to UniProtKB:  P39019
PHAROS:  P39019
GTEx:  ENSG00000105372 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39019
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25LA [auth e]125Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62851 (Homo sapiens)
Explore P62851 
Go to UniProtKB:  P62851
PHAROS:  P62851
GTEx:  ENSG00000118181 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62851
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18MA [auth f]152Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62269 (Homo sapiens)
Explore P62269 
Go to UniProtKB:  P62269
PHAROS:  P62269
GTEx:  ENSG00000231500 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62269
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S20NA [auth h]119Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P60866 (Homo sapiens)
Explore P60866 
Go to UniProtKB:  P60866
PHAROS:  P60866
GTEx:  ENSG00000008988 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP60866
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S29OA [auth i]56Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62273 (Homo sapiens)
Explore P62273 
Go to UniProtKB:  P62273
PHAROS:  P62273
GTEx:  ENSG00000213741 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62273
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
UbiquitinPA [auth k]156Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62979 (Homo sapiens)
Explore P62979 
Go to UniProtKB:  P62979
PHAROS:  P62979
GTEx:  ENSG00000143947 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62979
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12QA [auth m]132Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P25398 (Homo sapiens)
Explore P25398 
Go to UniProtKB:  P25398
PHAROS:  P25398
GTEx:  ENSG00000112306 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP25398
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S28RA [auth n]69Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62857 (Homo sapiens)
Explore P62857 
Go to UniProtKB:  P62857
PHAROS:  P62857
GTEx:  ENSG00000233927 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62857
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit GSA [auth o]320Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O75821 (Homo sapiens)
Explore O75821 
Go to UniProtKB:  O75821
PHAROS:  O75821
GTEx:  ENSG00000130811 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO75821
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 1A, X-chromosomalTA [auth q]144Homo sapiensMutation(s): 0 
Gene Names: EIF1AXEIF1AEIF4C
UniProt & NIH Common Fund Data Resources
Find proteins for P47813 (Homo sapiens)
Explore P47813 
Go to UniProtKB:  P47813
PHAROS:  P47813
GTEx:  ENSG00000173674 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP47813
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 2 subunit 1UA [auth r]315Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P05198 (Homo sapiens)
Explore P05198 
Go to UniProtKB:  P05198
PHAROS:  P05198
GTEx:  ENSG00000134001 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05198
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 2 subunit 3VA [auth t]472Homo sapiensMutation(s): 0 
EC: 3.6.5.3
UniProt & NIH Common Fund Data Resources
Find proteins for P41091 (Homo sapiens)
Explore P41091 
Go to UniProtKB:  P41091
PHAROS:  P41091
GTEx:  ENSG00000130741 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP41091
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit AWA [auth u]1,382Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q14152 (Homo sapiens)
Explore Q14152 
Go to UniProtKB:  Q14152
PHAROS:  Q14152
GTEx:  ENSG00000107581 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ14152
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit EXA [auth v]445Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P60228 (Homo sapiens)
Explore P60228 
Go to UniProtKB:  P60228
PHAROS:  P60228
GTEx:  ENSG00000104408 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP60228
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit DZA [auth x]548Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O15371 (Homo sapiens)
Explore O15371 
Go to UniProtKB:  O15371
PHAROS:  O15371
GTEx:  ENSG00000100353 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO15371
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 3 subunit CAB [auth y]913Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q99613 (Homo sapiens)
Explore Q99613 
Go to UniProtKB:  Q99613
PHAROS:  Q99613
GTEx:  ENSG00000184110 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99613
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 5BB [auth z]430Homo sapiensMutation(s): 0 
Gene Names: EIF5
UniProt & NIH Common Fund Data Resources
Find proteins for P55010 (Homo sapiens)
Explore P55010 
Go to UniProtKB:  P55010
PHAROS:  P55010
GTEx:  ENSG00000100664 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP55010
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains LengthOrganismImage
mRNAH [auth 7]255Homo sapiens
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChains LengthOrganismImage
18S rRNAK [auth A]1,869Homo sapiens
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 51
MoleculeChains LengthOrganismImage
Initiator Met-tRNA-iYA [auth w]75Homo sapiens
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download Ideal Coordinates CCD File 
CB [auth 0]GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
ZN
Query on ZN

Download Ideal Coordinates CCD File 
OE [auth Q],
QE [auth k]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
AC [auth A]
AD [auth A]
AE [auth A]
BC [auth A]
BD [auth A]
AC [auth A],
AD [auth A],
AE [auth A],
BC [auth A],
BD [auth A],
BE [auth A],
CC [auth A],
CD [auth A],
CE [auth A],
DC [auth A],
DD [auth A],
DE [auth A],
EB [auth 0],
EC [auth A],
ED [auth A],
EE [auth A],
FB [auth A],
FC [auth A],
FD [auth A],
FE [auth A],
GB [auth A],
GC [auth A],
GD [auth A],
GE [auth A],
HB [auth A],
HC [auth A],
HD [auth A],
HE [auth A],
IB [auth A],
IC [auth A],
ID [auth A],
IE [auth A],
JB [auth A],
JC [auth A],
JD [auth A],
JE [auth A],
KB [auth A],
KC [auth A],
KD [auth A],
KE [auth A],
LB [auth A],
LC [auth A],
LD [auth A],
LE [auth A],
MB [auth A],
MC [auth A],
MD [auth A],
ME [auth A],
NB [auth A],
NC [auth A],
ND [auth A],
NE [auth A],
OB [auth A],
OC [auth A],
OD [auth A],
PB [auth A],
PC [auth A],
PD [auth A],
PE [auth f],
QB [auth A],
QC [auth A],
QD [auth A],
RB [auth A],
RC [auth A],
RD [auth A],
SB [auth A],
SC [auth A],
SD [auth A],
TB [auth A],
TC [auth A],
TD [auth A],
UB [auth A],
UC [auth A],
UD [auth A],
VB [auth A],
VC [auth A],
VD [auth A],
WB [auth A],
WC [auth A],
WD [auth A],
XB [auth A],
XC [auth A],
XD [auth A],
YB [auth A],
YC [auth A],
YD [auth A],
ZB [auth A],
ZC [auth A],
ZD [auth A]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
NA
Query on NA

Download Ideal Coordinates CCD File 
DB [auth 0]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTCoot0.9.8.1
RECONSTRUCTIONRELION4.0

Structure Validation

View Full Validation Report

Currently 8PJ3 does not have a validation slider image.



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Max Planck SocietyGermany--
German Research Foundation (DFG)GermanyLeibniz-Preis

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-14
    Type: Initial release
  • Version 1.1: 2024-10-02
    Changes: Data collection, Database references