5OPT

Structure of KSRP in context of Trypanosoma cruzi 40S


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4 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:  

  • 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, Plateforme Protéomique Strasbourg-Esplanade FRC 1589, 67000 Strasbourg, France.,Université de Strasbourg, CNRS, Architecture et Réactivité de l'ARN, UPR 9002, 67000 Strasbourg, France.,Université de Strasbourg, CNRS, Architecture et Réactivité de l'ARN, UPR 9002, 67000 Strasbourg, France. Electronic address: y.hashem@ibmc-cnrs.unistra.fr.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Activated protein kinase C receptor, putative
p
318Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DTN2 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DTN2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein S29, putative
q
57Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4CXR4 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4CXR4
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S16, putative
r
149Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DEK4 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DEK4
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S15, putative
t
152Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DGZ5 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DGZ5
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S18, putative
u
153Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4E093 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4E093
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S4
L
273Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D5P4 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D5P4
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S23, putative
M
143Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DTQ1 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DTQ1
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S5, putative
O
190Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4E0Q3 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4E0Q3
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein S7, putative
Q
211Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4CUC7 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4CUC7
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S13, putative
R
151Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DC38 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DC38
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S27, putative
S
86Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DN73 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DN73
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S26
T
112Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4CYE4 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4CYE4
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S33, putative
U
112Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D7C8 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D7C8
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S14, putative
V
144Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D6I5 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D6I5
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S3a-2
W
261Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DZ41 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DZ41
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S11, putative
X
173Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D0U7 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D0U7
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S24
Y
137Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DW38 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DW38
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S8
Z
221Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DU83 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DU83
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S9, putative
b
190Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D4S1 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D4S1
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein SA
f
245Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4CQ63 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4CQ63
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S2, putative
d
263Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DIZ9 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DIZ9
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S15a, putative
e
130Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4E0N6 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4E0N6
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S21, putative
g
236Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4E3M0 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4E3M0
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein S25, putative
a
110Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DTX6 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DTX6
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S12
i
141Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4CSL1 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4CSL1
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin/ribosomal protein S27a, putative
j
150Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D1T6 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D1T6
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S6
P
250Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DSU0 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DSU0
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S17, putative
k
196Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DK40 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DK40
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein S20, putative
l
117Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4D6H7 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4D6H7
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S3, putative
m
214Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DMK9 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DMK9
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S10, putative
n
161Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4E088 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4E088
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein S19, putative
o
167Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DJY1 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DJY1
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
40S ribosomal protein S30
c
66Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DA48 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DA48
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
RNA-binding protein, putative
h
257Trypanosoma cruzi (strain CL Brener)Mutation(s): 0 
Find proteins for Q4DY32 (Trypanosoma cruzi (strain CL Brener))
Go to UniProtKB:  Q4DY32
Entity ID: 35
MoleculeChainsLengthOrganism
18S rRNAE2319Trypanosoma cruzi strain CL Brener
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



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
    Type: Database references