9AZM | pdb_00009azm

In situ human ribosome (Focused on 40S with SERBP1 CTD)

  • Classification: RIBOSOME
  • Organism(s): Homo sapiens
  • Mutation(s): No 

  • Deposited: 2024-03-11 Released: 2025-04-30 
  • Deposition Author(s): Wei, Z., Yong, Z.
  • Funding Organization(s): Not funded

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.68 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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


Literature

In situ human ribosome (Focused on 40S with SERBP1 CTD)

Wei, Z., Yong, Z.

To be published.

Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serbp1A [auth CD]85Homo sapiensMutation(s): 0 
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Find proteins for Q8NC51 (Homo sapiens)
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PHAROS:  Q8NC51
GTEx:  ENSG00000142864 
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UniProt GroupQ8NC51
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein uS3B [auth SD]227Homo sapiensMutation(s): 0 
EC: 4.2.99.18
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Find proteins for P23396 (Homo sapiens)
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PHAROS:  P23396
GTEx:  ENSG00000149273 
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UniProt GroupP23396
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5C [auth SF]189Homo sapiensMutation(s): 0 
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Find proteins for P46782 (Homo sapiens)
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PHAROS:  P46782
GTEx:  ENSG00000083845 
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UniProt GroupP46782
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S10D [auth SK]98Homo sapiensMutation(s): 0 
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Find proteins for P46783 (Homo sapiens)
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PHAROS:  P46783
GTEx:  ENSG00000124614 
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UniProt GroupP46783
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein uS19E [auth SP]121Homo sapiensMutation(s): 0 
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Find proteins for P62841 (Homo sapiens)
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PHAROS:  P62841
GTEx:  ENSG00000115268 
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UniProt GroupP62841
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein uS9F [auth SQ]144Homo sapiensMutation(s): 0 
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Find proteins for P62249 (Homo sapiens)
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PHAROS:  P62249
GTEx:  ENSG00000105193 
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UniProt GroupP62249
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18G [auth SS]145Homo sapiensMutation(s): 0 
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Find proteins for P62269 (Homo sapiens)
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PHAROS:  P62269
GTEx:  ENSG00000231500 
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UniProt GroupP62269
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S19H [auth ST]143Homo sapiensMutation(s): 0 
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Find proteins for P39019 (Homo sapiens)
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PHAROS:  P39019
GTEx:  ENSG00000105372 
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UniProt GroupP39019
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S20I [auth SU]104Homo sapiensMutation(s): 0 
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Find proteins for P60866 (Homo sapiens)
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PHAROS:  P60866
GTEx:  ENSG00000008988 
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UniProt GroupP60866
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S28J [auth Sc]64Homo sapiensMutation(s): 0 
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Find proteins for P62857 (Homo sapiens)
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PHAROS:  P62857
GTEx:  ENSG00000233927 
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UniProt GroupP62857
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S29K [auth Sd]55Homo sapiensMutation(s): 0 
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Find proteins for P62273 (Homo sapiens)
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GTEx:  ENSG00000213741 
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UniProt GroupP62273
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Receptor of activated protein C kinase 1L [auth Sg]313Homo sapiensMutation(s): 0 
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Find proteins for P63244 (Homo sapiens)
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PHAROS:  P63244
GTEx:  ENSG00000204628 
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UniProt GroupP63244
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein eS12M [auth SM]122Homo sapiensMutation(s): 0 
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Find proteins for P25398 (Homo sapiens)
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PHAROS:  P25398
GTEx:  ENSG00000112306 
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UniProt GroupP25398
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein eS25N [auth SZ]75Homo sapiensMutation(s): 0 
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Find proteins for P62851 (Homo sapiens)
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PHAROS:  P62851
GTEx:  ENSG00000118181 
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UniProt GroupP62851
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-40S ribosomal protein S27aO [auth Sf]67Homo sapiensMutation(s): 0 
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Find proteins for P62979 (Homo sapiens)
Explore P62979 
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PHAROS:  P62979
GTEx:  ENSG00000143947 
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UniProt GroupP62979
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Entity ID: 16
MoleculeChains LengthOrganismImage
18S rRNAP [auth S2]1,740Homo sapiens
Sequence Annotations
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.68 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487:

Structure Validation

View Full Validation Report



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

Deposition Data

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-30
    Type: Initial release