6IAN

T. brucei IFT22/74/81 GTP-bound crystal structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.243 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Binding of IFT22 to the intraflagellar transport complex is essential for flagellum assembly.

Wachter, S.Jung, J.Shafiq, S.Basquin, J.Fort, C.Bastin, P.Lorentzen, E.

(2019) EMBO J 38

  • DOI: 10.15252/embj.2018101251
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Intraflagellar transport (IFT) relies on motor proteins and the IFT complex to construct cilia and flagella. The IFT complex subunit IFT22/RabL5 has sequence similarity with small GTPases although the nucleotide specificity is unclear because of non- ...

    Intraflagellar transport (IFT) relies on motor proteins and the IFT complex to construct cilia and flagella. The IFT complex subunit IFT22/RabL5 has sequence similarity with small GTPases although the nucleotide specificity is unclear because of non-conserved G4/G5 motifs. We show that IFT22 specifically associates with G-nucleotides and present crystal structures of IFT22 in complex with GDP, GTP, and with IFT74/81. Our structural analysis unravels an unusual GTP/GDP-binding mode of IFT22 bypassing the classical G4 motif. The GTPase switch regions of IFT22 become ordered upon complex formation with IFT74/81 and mediate most of the IFT22-74/81 interactions. Structure-based mutagenesis reveals that association of IFT22 with the IFT complex is essential for flagellum construction in Trypanosoma brucei although IFT22 GTP-loading is not strictly required.


    Organizational Affiliation

    Department of Molecular Biology and Genetics, Aarhus University, Aarhus C, Denmark el@mbg.au.dk.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Intraflagellar transport protein 74A, B328Trypanosoma brucei brucei TREU927Mutation(s): 0 
Gene Names: Tb927.7.3370
Find proteins for Q57WF2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Explore Q57WF2 
Go to UniProtKB:  Q57WF2
Protein Feature View
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  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Rab-like 5E220Trypanosoma brucei equiperdumMutation(s): 0 
Gene Names: RABL5DPX39_110145000
Find proteins for Q381A3 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Explore Q381A3 
Go to UniProtKB:  Q381A3
Protein Feature View
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  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Intraflagellar transport protein 81C, D454Trypanosoma brucei brucei TREU927Mutation(s): 0 
Gene Names: Tb10.70.5020
Find proteins for Q38BY1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Explore Q38BY1 
Go to UniProtKB:  Q38BY1
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download CCD File 
E
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download CCD File 
E
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A,BL-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.243 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.86α = 90
b = 228.3β = 96.76
c = 115.71γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Novo Nordisk FoundationDenmarkNNF15OC0014164

Revision History 

  • Version 1.0: 2019-05-01
    Type: Initial release
  • Version 1.1: 2019-05-08
    Changes: Data collection, Database references