6AZ3

Cryo-EM structure of of the large subunit of Leishmania ribosome bound to paromomycin


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Atomic resolution snapshot of Leishmania ribosome inhibition by the aminoglycoside paromomycin.

Shalev-Benami, M.Zhang, Y.Rozenberg, H.Nobe, Y.Taoka, M.Matzov, D.Zimmerman, E.Bashan, A.Isobe, T.Jaffe, C.L.Yonath, A.Skiniotis, G.

(2017) Nat Commun 8: 1589-1589

  • DOI: https://doi.org/10.1038/s41467-017-01664-4
  • Primary Citation of Related Structures:  
    6AZ1, 6AZ3

  • PubMed Abstract: 

    Leishmania is a single-celled eukaryotic parasite afflicting millions of humans worldwide, with current therapies limited to a poor selection of drugs that mostly target elements in the parasite's cell envelope. Here we determined the atomic resolution electron cryo-microscopy (cryo-EM) structure of the Leishmania ribosome in complex with paromomycin (PAR), a highly potent compound recently approved for treatment of the fatal visceral leishmaniasis (VL). The structure reveals the mechanism by which the drug induces its deleterious effects on the parasite. We further show that PAR interferes with several aspects of cytosolic translation, thus highlighting the cytosolic rather than the mitochondrial ribosome as the primary drug target. The results also highlight unique as well as conserved elements in the PAR-binding pocket that can serve as hotspots for the development of novel therapeutics.


  • Organizational Affiliation

    Faculty of Chemistry, Department of Structural Biology, Weizmann Institute of Science, Rehovot, 761001, Israel. moransb@stanford.edu.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein uL2254Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein uL3402Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L1a, putative366Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S5H7L0 (Leishmania donovani)
Explore A0A3S5H7L0 
Go to UniProtKB:  A0A3S5H7L0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S5H7L0
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L11 (L5, L16)168Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S5H5A8 (Leishmania donovani)
Explore A0A3S5H5A8 
Go to UniProtKB:  A0A3S5H5A8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S5H5A8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L9, putative186Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S7X3V0 (Leishmania donovani)
Explore A0A3S7X3V0 
Go to UniProtKB:  A0A3S7X3V0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S7X3V0
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein eL6195Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7a348Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9B949 (Leishmania donovani)
Explore E9B949 
Go to UniProtKB:  E9B949
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9B949
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein uL13221Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein eL13212Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23, putative134Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IIA7 (Leishmania donovani)
Explore A0A3Q8IIA7 
Go to UniProtKB:  A0A3Q8IIA7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IIA7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Probable 60S ribosomal protein L14149Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for Q25278 (Leishmania donovani)
Explore Q25278 
Go to UniProtKB:  Q25278
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ25278
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27A/L29, putative144Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IGI9 (Leishmania donovani)
Explore A0A3Q8IGI9 
Go to UniProtKB:  A0A3Q8IGI9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IGI9
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L15203Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BMB4 (Leishmania donovani)
Explore E9BMB4 
Go to UniProtKB:  E9BMB4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BMB4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10, putative213Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S5H5C4 (Leishmania donovani)
Explore A0A3S5H5C4 
Go to UniProtKB:  A0A3S5H5C4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S5H5C4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L5, putative305Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IJC5 (Leishmania donovani)
Explore A0A3Q8IJC5 
Go to UniProtKB:  A0A3Q8IJC5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IJC5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18, putative197Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S7XBN1 (Leishmania donovani)
Explore A0A3S7XBN1 
Go to UniProtKB:  A0A3S7XBN1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S7XBN1
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L19e family protein189Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A504XXD2 (Leishmania donovani)
Explore A0A504XXD2 
Go to UniProtKB:  A0A504XXD2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A504XXD2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18a178Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IT55 (Leishmania donovani)
Explore A0A3Q8IT55 
Go to UniProtKB:  A0A3Q8IT55
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IT55
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L21, putative154Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8ICH0 (Leishmania donovani)
Explore A0A3Q8ICH0 
Go to UniProtKB:  A0A3Q8ICH0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8ICH0
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L17, putative154Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S7WY02 (Leishmania donovani)
Explore A0A3S7WY02 
Go to UniProtKB:  A0A3S7WY02
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S7WY02
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L22, putative121Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IJA8 (Leishmania donovani)
Explore A0A3Q8IJA8 
Go to UniProtKB:  A0A3Q8IJA8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IJA8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23a, putative118Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9B8R9 (Leishmania donovani)
Explore E9B8R9 
Go to UniProtKB:  E9B8R9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9B8R9
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein uL24121Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein eL2465Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal L27e family protein132Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A504XEJ0 (Leishmania donovani)
Explore A0A504XEJ0 
Go to UniProtKB:  A0A504XEJ0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A504XEJ0
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L28, putative140Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8I959 (Leishmania donovani)
Explore A0A3Q8I959 
Go to UniProtKB:  A0A3Q8I959
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8I959
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
60S_ribosomal_protein_L35_putative/GeneDB:LmjF.26.2330/GeneDB:LmjF.26.2340AA [auth a]125Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BIP6 (Leishmania donovani)
Explore E9BIP6 
Go to UniProtKB:  E9BIP6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BIP6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29BA [auth b]68Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A504XJE6 (Leishmania donovani)
Explore A0A504XJE6 
Go to UniProtKB:  A0A504XJE6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A504XJE6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7 family proteinCA [auth c]227Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A504XVT8 (Leishmania donovani)
Explore A0A504XVT8 
Go to UniProtKB:  A0A504XVT8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A504XVT8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L30DA [auth d]92Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IET6 (Leishmania donovani)
Explore A0A3Q8IET6 
Go to UniProtKB:  A0A3Q8IET6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IET6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal subunit protein L31, putativeEA [auth e]119Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IJL7 (Leishmania donovani)
Explore A0A3Q8IJL7 
Go to UniProtKB:  A0A3Q8IJL7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IJL7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
60S_ribosomal_protein_L32/GeneDB:LmjF.21.1720FA [auth f]130Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A504XZK6 (Leishmania donovani)
Explore A0A504XZK6 
Go to UniProtKB:  A0A504XZK6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A504XZK6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L35Ae family proteinGA [auth g]125Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8II82 (Leishmania donovani)
Explore A0A3Q8II82 
Go to UniProtKB:  A0A3Q8II82
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8II82
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L34, putativeHA [auth h]125Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IHK2 (Leishmania donovani)
Explore A0A3Q8IHK2 
Go to UniProtKB:  A0A3Q8IHK2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IHK2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36, putativeIA [auth i]97Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8IDW6 (Leishmania donovani)
Explore A0A3Q8IDW6 
Go to UniProtKB:  A0A3Q8IDW6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8IDW6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L37JA [auth j]80Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for P62885 (Leishmania donovani)
Explore P62885 
Go to UniProtKB:  P62885
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62885
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal L38e family proteinKA [auth k]76Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A504WZU0 (Leishmania donovani)
Explore A0A504WZU0 
Go to UniProtKB:  A0A504WZU0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A504WZU0
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L39, putativeLA [auth l]50Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BCX6 (Leishmania donovani)
Explore E9BCX6 
Go to UniProtKB:  E9BCX6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BCX6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-60S ribosomal protein L40MA [auth m]50Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8ISR1 (Leishmania donovani)
Explore A0A3Q8ISR1 
Go to UniProtKB:  A0A3Q8ISR1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8ISR1
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
ribosomal protein eL41NA [auth n]33Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L37aOA [auth o]90Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BFK4 (Leishmania donovani)
Explore E9BFK4 
Go to UniProtKB:  E9BFK4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BFK4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L44, putativePA [auth p]96Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BBL5 (Leishmania donovani)
Explore E9BBL5 
Go to UniProtKB:  E9BBL5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BBL5
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 43
MoleculeChains LengthOrganismImage
rRNA alphaQA [auth 1]1,778Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 44
MoleculeChains LengthOrganismImage
rRNA betaRA [auth 2]1,526Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 45
MoleculeChains LengthOrganismImage
rRNA gammaSA [auth 3]211Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 46
MoleculeChains LengthOrganismImage
rRNA deltaTA [auth 4]183Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 47
MoleculeChains LengthOrganismImage
rRNA epsilonUA [auth 5]133Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 48
MoleculeChains LengthOrganismImage
rRNA zetaVA [auth 6]71Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 49
MoleculeChains LengthOrganismImage
rRNA 5.8SWA [auth 7]171Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 50
MoleculeChains LengthOrganismImage
rRNA 5SXA [auth 8]118Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PAR
Query on PAR

Download Ideal Coordinates CCD File 
AB [auth 1]
AC [auth 2]
BB [auth 1]
BC [auth 2]
CB [auth 1]
AB [auth 1],
AC [auth 2],
BB [auth 1],
BC [auth 2],
CB [auth 1],
CC [auth 2],
NC [auth 7],
YA [auth 1],
ZA [auth 1],
ZB [auth 2]
PAROMOMYCIN
C23 H45 N5 O14
UOZODPSAJZTQNH-LSWIJEOBSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
DB [auth 1]
DC [auth 2]
EB [auth 1]
EC [auth 2]
FB [auth 1]
DB [auth 1],
DC [auth 2],
EB [auth 1],
EC [auth 2],
FB [auth 1],
FC [auth 2],
GB [auth 1],
GC [auth 2],
HB [auth 1],
HC [auth 2],
IB [auth 1],
IC [auth 2],
JB [auth 1],
JC [auth 2],
KB [auth 1],
KC [auth 3],
LB [auth 1],
LC [auth 4],
MB [auth 1],
MC [auth 5],
NB [auth 1],
OB [auth 1],
OC [auth 7],
PB [auth 1],
PC [auth 7],
QB [auth 1],
RB [auth 1],
SB [auth 1],
TB [auth 1],
UB [auth 1],
VB [auth 1],
WB [auth 1],
XB [auth 1],
YB [auth 2]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-12-06
    Type: Initial release
  • Version 1.1: 2017-12-13
    Changes: Database references
  • Version 2.0: 2022-04-13
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Source and taxonomy, Structure summary