5OPT

Structure of KSRP in context of Trypanosoma cruzi 40S


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The cryo-EM Structure of a Novel 40S Kinetoplastid-Specific Ribosomal Protein.

Brito Querido, J.Mancera-Martinez, E.Vicens, Q.Bochler, A.Chicher, J.Simonetti, A.Hashem, Y.

(2017) Structure 25: 1785-1794.e3

  • DOI: 10.1016/j.str.2017.09.014
  • Primary Citation of Related Structures:  
    5OPT, 5OSG

  • PubMed Abstract: 
  • Kinetoplastids are potentially lethal protozoan pathogens affecting more than 20 million people worldwide. There is a critical need for more specific targets for the development of safer anti-kinetoplastid therapeutic molecules that can replace the s ...

    Kinetoplastids are potentially lethal protozoan pathogens affecting more than 20 million people worldwide. There is a critical need for more specific targets for the development of safer anti-kinetoplastid therapeutic molecules that can replace the scarce and highly cytotoxic current drugs. The kinetoplastid ribosome represents a potential therapeutic target due to its relative structural divergence when compared with its human counterpart. However, several kinetoplastid-specific ribosomal features remain uncharacterized. Here, we present the near-atomic cryoelectron microscopy structure of a novel bona fide kinetoplastid-specific ribosomal (r-) protein (KSRP) bound to the ribosome. KSRP is an essential protein located at the solvent face of the 40S subunit, where it binds and stabilizes kinetoplastid-specific domains of rRNA, suggesting its role in ribosome integrity. KSRP also interacts with the r-protein eS6 at a region that is only conserved in kinetoplastids. The kinetoplastid-specific ribosomal environment of KSRP provides a promising target for the design of safer anti-kinetoplastidian drugs.


    Organizational Affiliation

    Université de Strasbourg, CNRS, Architecture et Réactivité de l'ARN, UPR 9002, 67000 Strasbourg, France. Electronic address: y.hashem@ibmc-cnrs.unistra.fr.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Activated protein kinase C receptor, putativep318Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511211.120Tc00.1047053511211.130
Find proteins for Q4DTN2 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S15, putativet152Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511809.130Tc00.1047053511809.99Tc00.1047053511811.10
Find proteins for Q4DGZ5 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S13, putativeR151Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511291.90
Find proteins for Q4DC38 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S21, putativeg236Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053510101.420
Find proteins for Q4E3M0 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
Ribosomal protein S20, putativel117Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053508475.10Tc00.1047053508823.120Tc00.1047053508823.140
Find proteins for Q4D6H7 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S3, putativem214Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053504021.109Tc00.1047053507677.39Tc00.1047053509353.30
Find proteins for Q4DMK9 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S10, putativen161Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506679.140Tc00.1047053506679.150
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S30c66Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053507019.83Tc00.1047053507019.86
Find proteins for Q4DA48 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S27, putativeS86Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506963.14Tc00.1047053511233.14Tc00.1047053511277.175
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Entity ID: 12
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40S ribosomal protein S26T112Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053503801.20Tc00.1047053508817.60
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S33, putativeU112Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511237.60
Find proteins for Q4D7C8 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S14, putativeV144Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053409117.20Tc00.1047053506945.230Tc00.1047053508823.50
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S3a-2W261Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511001.9Tc00.1047053511001.18
Find proteins for Q4DZ41 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S11, putativeX173Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053508319.70Tc00.1047053508405.40
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S24Y137Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053507681.150Tc00.1047053507681.160
Find proteins for Q4DW38 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S8Z221Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511903.110
Find proteins for Q4DU83 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S9, putativeb190Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053504163.30Tc00.1047053506401.120
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Ribosomal protein S29, putativeq57Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506025.14Tc00.1047053511209.54Tc00.1047053511805.15
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein SAf245Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053510425.19
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Entity ID: 21
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40S ribosomal protein S2, putatived263Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053503833.40Tc00.1047053506213.60Tc00.1047053511287.120Tc00.1047053511287.40
Find proteins for Q4DIZ9 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S15a, putativee130Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506297.330
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
Ribosomal protein S25, putativea110Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053504105.94Tc00.1047053509233.190
Find proteins for Q4DTX6 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S12i141Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053503395.50Tc00.1047053506181.59
Find proteins for Q4CSL1 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 26
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Ubiquitin/ribosomal protein S27a, putativej150Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053510409.39
Find proteins for Q4D1T6 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S6P250Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053510769.49
Find proteins for Q4DSU0 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S17, putativek196Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053508827.70
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Entity ID: 3
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40S ribosomal protein S16, putativer149Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053503899.20Tc00.1047053503899.30
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Entity ID: 32
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Ribosomal protein S19, putativeo167Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053510879.20
Find proteins for Q4DJY1 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 34
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RNA-binding protein, putativeh257Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053511727.270
Find proteins for Q4DY32 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
40S ribosomal protein S18, putativeu153Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506679.100Tc00.1047053506679.94
Find proteins for Q4E093 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 6
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40S ribosomal protein S4L273Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053509683.117Tc00.1047053511051.39Tc00.1047053511051.50
Find proteins for Q4D5P4 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 7
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40S ribosomal protein S23, putativeM143Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053504181.20Tc00.1047053504181.30Tc00.1047053509695.180Tc00.1047053509695.184
Find proteins for Q4DTQ1 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 8
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40S ribosomal protein S5, putativeO190Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506297.150Tc00.1047053506297.160
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Entity ID: 9
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Ribosomal protein S7, putativeQ211Trypanosoma cruzi strain CL BrenerMutation(s): 0 
Gene Names: Tc00.1047053506593.30
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Entity ID: 35
MoleculeChainsLengthOrganismImage
18S rRNAE2319Trypanosoma cruzi strain CL Brener
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
The French National Research AgencyFranceANR-14-ACHN-0024
LABEXFranceANR-10-LABX-0036_NETRNA

Revision History 

  • Version 1.0: 2017-11-15
    Type: Initial release
  • Version 1.1: 2017-12-13
    Changes: Database references