5T2A | pdb_00005t2a

CryoEM structure of the Leishmania donovani 80S ribosome at 2.9 Angstrom resolution

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structures and stabilization of kinetoplastid-specific split rRNAs revealed by comparing leishmanial and human ribosomes.

Zhang, X., Lai, M., Chang, W., Yu, I., Ding, K., Mrazek, J., Ng, H.L., Yang, O.O., Maslov, D.A., Zhou, Z.H.

(2016) Nat Commun 7: 13223-13223

  • DOI: https://doi.org/10.1038/ncomms13223
  • Primary Citation of Related Structures:  
    5T2A, 5T2C

  • PubMed Abstract: 

    The recent success in ribosome structure determination by cryoEM has opened the door to defining structural differences between ribosomes of pathogenic organisms and humans and to understand ribosome-targeting antibiotics. Here, by direct electron-counting cryoEM, we have determined the structures of the Leishmania donovani and human ribosomes at 2.9 Å and 3.6 Å, respectively. Our structure of the leishmanial ribosome elucidates the organization of the six fragments of its large subunit rRNA (as opposed to a single 28S rRNA in most eukaryotes, including humans) and reveals atomic details of a unique 20 amino acid extension of the uL13 protein that pins down the ends of three of the rRNA fragments. The structure also fashions many large rRNA expansion segments. Direct comparison of our human and leishmanial ribosome structures at the decoding A-site sheds light on how the bacterial ribosome-targeting drug paromomycin selectively inhibits the eukaryotic L. donovani, but not human, ribosome.

    • Organizational Affiliation: 

    Center of Cryo Electron Microscopy, Zhejiang University School of Medicine, Hangzhou, Zhejiang 310058, China.


Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
eL18198Leishmania 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: 10
MoleculeChains Sequence LengthOrganismDetailsImage
uL16213Leishmania 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: 11
MoleculeChains Sequence LengthOrganismDetailsImage
uL5188Leishmania 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: 12
MoleculeChains Sequence LengthOrganismDetailsImage
eL13220Leishmania 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: 13
MoleculeChains Sequence LengthOrganismDetailsImage
uL13222Leishmania 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: 14
MoleculeChains Sequence LengthOrganismDetailsImage
eL14175Leishmania 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: 15
MoleculeChains Sequence LengthOrganismDetailsImage
eL15204Leishmania 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: 16
MoleculeChains Sequence LengthOrganismDetailsImage
uL22166Leishmania 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: 17
MoleculeChains Sequence LengthOrganismDetailsImage
eL20179Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8II03 (Leishmania donovani)
Explore A0A3Q8II03 
Go to UniProtKB:  A0A3Q8II03
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8II03
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
eL19245Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9B8Q2 (Leishmania donovani)
Explore E9B8Q2 
Go to UniProtKB:  E9B8Q2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9B8Q2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
eL21159Leishmania 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
eL22129Leishmania 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: 21
MoleculeChains Sequence LengthOrganismDetailsImage
uL14139Leishmania 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: 22
MoleculeChains Sequence LengthOrganismDetailsImage
uL23145Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for D1M863 (Leishmania donovani)
Explore D1M863 
Go to UniProtKB:  D1M863
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD1M863
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
eL24124Leishmania 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
uL24143Leishmania 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
eL27134Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BP34 (Leishmania donovani)
Explore E9BP34 
Go to UniProtKB:  E9BP34
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BP34
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
uL15145Leishmania 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: 27
MoleculeChains Sequence LengthOrganismDetailsImage
eL28AA [auth a]147Leishmania 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: 28
MoleculeChains Sequence LengthOrganismDetailsImage
eL29BA [auth b]70Leishmania 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: 29
MoleculeChains Sequence LengthOrganismDetailsImage
uL2CA [auth c]260Leishmania 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: 30
MoleculeChains Sequence LengthOrganismDetailsImage
uL3DA [auth d]419Leishmania 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: 31
MoleculeChains Sequence LengthOrganismDetailsImage
eL30EA [auth e]104Leishmania 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: 32
MoleculeChains Sequence LengthOrganismDetailsImage
eL31FA [auth f]183Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BSK4 (Leishmania donovani)
Explore E9BSK4 
Go to UniProtKB:  E9BSK4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BSK4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
eL32GA [auth g]133Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S7X954 (Leishmania donovani)
Explore A0A3S7X954 
Go to UniProtKB:  A0A3S7X954
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S7X954
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
eL34HA [auth h]168Leishmania 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
uL29IA [auth i]127Leishmania 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: 36
MoleculeChains Sequence LengthOrganismDetailsImage
eL33JA [auth j]144Leishmania 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: 37
MoleculeChains Sequence LengthOrganismDetailsImage
eL36KA [auth k]105Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S7X961 (Leishmania donovani)
Explore A0A3S7X961 
Go to UniProtKB:  A0A3S7X961
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S7X961
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
eL37LA [auth l]83Leishmania 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: 39
MoleculeChains Sequence LengthOrganismDetailsImage
eL43MA [auth m]92Leishmania 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: 40
MoleculeChains Sequence LengthOrganismDetailsImage
eL38NA [auth n]83Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9B7P2 (Leishmania donovani)
Explore E9B7P2 
Go to UniProtKB:  E9B7P2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9B7P2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
eL39OA [auth o]51Leishmania 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: 42
MoleculeChains Sequence LengthOrganismDetailsImage
uL4PA [auth p]373Leishmania 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: 43
MoleculeChains Sequence LengthOrganismDetailsImage
eL40QA [auth q]128Leishmania 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: 44
MoleculeChains Sequence LengthOrganismDetailsImage
eL42RA [auth r]106Leishmania 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 proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
uL18SA [auth s]305Leishmania 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: 46
MoleculeChains Sequence LengthOrganismDetailsImage
eL6TA [auth t]195Leishmania 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: 47
MoleculeChains Sequence LengthOrganismDetailsImage
uL30UA [auth u]252Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BI29 (Leishmania donovani)
Explore E9BI29 
Go to UniProtKB:  E9BI29
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BI29
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
eL8VA [auth v]348Leishmania 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: 49
MoleculeChains Sequence LengthOrganismDetailsImage
uL6WA [auth w]190Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S7WWL2 (Leishmania donovani)
Explore A0A3S7WWL2 
Go to UniProtKB:  A0A3S7WWL2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S7WWL2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
eS1XA [auth 0]264Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BRS2 (Leishmania donovani)
Explore E9BRS2 
Go to UniProtKB:  E9BRS2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BRS2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
eS4YA [auth 1]273Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8I8K3 (Leishmania donovani)
Explore A0A3Q8I8K3 
Go to UniProtKB:  A0A3Q8I8K3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8I8K3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
eS6AB [auth 3]249Leishmania 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: 54
MoleculeChains Sequence LengthOrganismDetailsImage
eS7BB [auth 4]200Leishmania 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: 55
MoleculeChains Sequence LengthOrganismDetailsImage
eS8CB [auth 5]220Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3Q8ID68 (Leishmania donovani)
Explore A0A3Q8ID68 
Go to UniProtKB:  A0A3Q8ID68
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q8ID68
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
uS4DB [auth 6]190Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for A0A3S5H5Z2 (Leishmania donovani)
Explore A0A3S5H5Z2 
Go to UniProtKB:  A0A3S5H5Z2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3S5H5Z2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
RACK1EB [auth 7]312Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for Q9BIJ5 (Leishmania donovani)
Explore Q9BIJ5 
Go to UniProtKB:  Q9BIJ5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BIJ5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
uS14FB [auth 8]57Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BJV7 (Leishmania donovani)
Explore E9BJV7 
Go to UniProtKB:  E9BJV7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BJV7
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
uS2GB [auth AC]246Leishmania 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: 60
MoleculeChains Sequence LengthOrganismDetailsImage
eS10HB [auth AD]153Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BTG4 (Leishmania donovani)
Explore E9BTG4 
Go to UniProtKB:  E9BTG4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BTG4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
uS17IB [auth AE]173Leishmania 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: 62
MoleculeChains Sequence LengthOrganismDetailsImage
uS15JB [auth AG]151Leishmania 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: 63
MoleculeChains Sequence LengthOrganismDetailsImage
uS11KB [auth AH]144Leishmania 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: 64
MoleculeChains Sequence LengthOrganismDetailsImage
uS19LB [auth AI]152Leishmania 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: 65
MoleculeChains Sequence LengthOrganismDetailsImage
uS8MB [auth AJ]130Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BAV6 (Leishmania donovani)
Explore E9BAV6 
Go to UniProtKB:  E9BAV6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BAV6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
uS9NB [auth AK]149Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BI96 (Leishmania donovani)
Explore E9BI96 
Go to UniProtKB:  E9BI96
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BI96
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
eS17OB [auth AL]143Leishmania 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: 68
MoleculeChains Sequence LengthOrganismDetailsImage
uS13PB [auth AM]153Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BTF9 (Leishmania donovani)
Explore E9BTF9 
Go to UniProtKB:  E9BTF9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BTF9
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
uS7QB [auth AN]190Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for Q868B1 (Leishmania major)
Explore Q868B1 
Go to UniProtKB:  Q868B1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ868B1
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
eS19RB [auth AO]179Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BR60 (Leishmania donovani)
Explore E9BR60 
Go to UniProtKB:  E9BR60
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BR60
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
uS5SB [auth AP]265Leishmania 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: 72
MoleculeChains Sequence LengthOrganismDetailsImage
uS10TB [auth AQ]116Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BJI2 (Leishmania donovani)
Explore E9BJI2 
Go to UniProtKB:  E9BJI2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BJI2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
eS21UB [auth AR]164Leishmania 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: 74
MoleculeChains Sequence LengthOrganismDetailsImage
uS12VB [auth AS]143Leishmania 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: 75
MoleculeChains Sequence LengthOrganismDetailsImage
eS24WB [auth AT]137Leishmania 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: 76
MoleculeChains Sequence LengthOrganismDetailsImage
eS26XB [auth AV]112Leishmania 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: 77
MoleculeChains Sequence LengthOrganismDetailsImage
eS27YB [auth AW]86Leishmania 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: 78
MoleculeChains Sequence LengthOrganismDetailsImage
uS3ZB [auth AX]219Leishmania 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: 79
MoleculeChains Sequence LengthOrganismDetailsImage
eS30AC [auth AY]66Leishmania donovaniMutation(s): 0 
UniProt
Find proteins for E9BLG3 (Leishmania donovani)
Explore E9BLG3 
Go to UniProtKB:  E9BLG3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE9BLG3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
eS28BC [auth AZ]87Leishmania donovaniMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains LengthOrganismImage
LSU-alpha1,781Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains LengthOrganismImage
LSU-beta1,465Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains LengthOrganismImage
5.8S rRNA262Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains LengthOrganismImage
5S rRNA120Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains LengthOrganismImage
srRNA1213Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains LengthOrganismImage
srRNA373Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains LengthOrganismImage
srRNA2183Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains LengthOrganismImage
srRNA4127Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 52
MoleculeChains LengthOrganismImage
18S rRNAZA [auth 2]2,205Leishmania donovani
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-01-25
    Type: Initial release
  • Version 1.1: 2018-07-18
    Changes: Data collection
  • Version 1.2: 2024-11-13
    Changes: Data collection, Database references, Structure summary