9E2G | pdb_00009e2g

Cryo-EM structure of 48 nm repeat of microtubule doublet from T. brucei flagellum


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Trypanosome doublet microtubule structures reveal flagellum assembly and motility mechanisms.

Xia, X.Shimogawa, M.M.Wang, H.Liu, S.Wijono, A.Langousis, G.Kassem, A.M.Wohlschlegel, J.A.Hill, K.L.Zhou, Z.H.

(2025) Science 387: eadr3314-eadr3314

  • DOI: https://doi.org/10.1126/science.adr3314
  • Primary Citation of Related Structures:  
    9E2G, 9E5C

  • PubMed Abstract: 

    The flagellum of Trypanosoma brucei drives the parasite's characteristic screw-like motion and is essential for its replication, transmission, and pathogenesis. However, the molecular details of this process remain unclear. Here, we present high-resolution (up to 2.8 angstrom) cryo-electron microscopy structures of T. brucei flagellar doublet microtubules (DMTs). Integrated modeling identified 154 different axonemal proteins inside and outside the DMT and, together with genetic and proteomic interrogation, revealed conserved and trypanosome-specific foundations of flagellum assembly and motility. We captured axonemal dynein motors in their pre-power stroke state. Comparing atomic models between pre- and post-power strokes defined how dynein structural changes drive sliding of adjacent DMTs during flagellar beating. This study illuminates structural dynamics underlying flagellar motility and identifies pathogen-specific proteins to consider for therapeutic interventions targeting neglected diseases.


  • Organizational Affiliation

    Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, CA, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing family member C2A [auth 0A],
B [auth 0B],
C [auth 0C],
D [auth 0D]
752Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing family member C2E [auth 0E]779Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Rib72 protein-like proteinF [auth 0F]724Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
CMF34/CARP4G [auth 0G]779Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Flagellar protofilament ribbon protein, putativeH [auth 0H],
I [auth 0I],
J [auth 0J],
K [auth 0K]
385Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 53L [auth 0M],
M [auth 0N]
483Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Meiosis-specific nuclear structural protein 1N [auth 0O],
O [auth 0P]
436Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoside diphosphate kinase, putativeP [auth 0Q]334Trypanosoma brucei brucei TREU927Mutation(s): 0 
EC: 2.7.4.6
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoside diphosphate kinase, putativeQ [auth 0R]349Trypanosoma brucei brucei TREU927Mutation(s): 0 
EC: 2.7.4.6
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing proteinR [auth 0S]422Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing proteinS [auth 0T]422Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Cyclic nucleotide-binding domain-containing proteinT [auth 0U]331Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
TbMIP23U [auth 0V]219Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
FAP141V [auth 0W]130Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing proteinW [auth 0X]270Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Calpain-like cysteine peptidase, putativeX [auth 0Y]301Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q381R3 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing proteinY [auth 0Z]552Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Calcium-binding protein, putativeZ [auth 1A]359Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing proteinAA [auth 1B]297Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q38F14 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidyl-prolyl cis-trans isomeraseBA [auth 1C]282Trypanosoma brucei brucei TREU927Mutation(s): 0 
EC: 5.2.1.8
UniProt
Find proteins for A0A1G4I9Z4 (Trypanosoma equiperdum)
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing proteinCA [auth 1D]320Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
FAP107/MC11DA [auth 1E]249Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
T. brucei spp.-specific proteinEA [auth 1F]254Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
FAP95/MC6FA [auth 1G]182Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
FAP129GA [auth 1H]386Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
T. brucei spp.-specific proteinHA [auth 1I],
IA [auth 1J]
417Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
FAP21JA [auth 1K],
KA [auth 1L]
415Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
Flagellar associated proteinLA [auth 1M],
MA [auth 1N]
415Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
TbRib26bNA [auth 1O],
OA [auth 1P],
WD [auth 4X]
247Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
PACRGAPA [auth 1Q],
QA [auth 1R],
RA [auth 1S]
300Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
PACRGBSA [auth 1T],
TA [auth 1U]
312Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 20294Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 52AB [auth 2B],
BB [auth 2C],
CB [auth 2D]
629Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
Enkurin domain-containing proteinDB [auth 2E],
EB [auth 2F]
274Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
Enkurin domain-containing proteinFB [auth 2G],
GB [auth 2H]
374Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
MC4HB [auth 2I],
IB [auth 2J],
JB [auth 2K]
369Trypanosoma brucei brucei TREU927Mutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
MC5KB [auth 2L],
LB [auth 2M]
272Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
CCDC81 HU domain-containing proteinMB [auth 2N]262Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 45NB [auth 2O],
OB [auth 2P],
PB [auth 2Q],
QB [auth 2R]
483Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
Trichohyalin-plectin-homology domain-containing proteinRB [auth 2S],
SB [auth 2T],
TB [auth 2U]
515Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q386E1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
Trichohyalin-plectin-homology domain-containing protein348Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q383H7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
STOP axonemal protein266Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q57YM5 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
MC8PC [auth 3Q]270Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q386N3 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
MC3QC [auth 3R]325Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q38AQ1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
FAP90RC [auth 3S]191Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q57ZR3 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
PBP36SC [auth 3T],
TC [auth 3U]
320Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q57UM2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
Enkurin domain-containing proteinUC [auth 3V],
VC [auth 3W],
WC [auth 3X]
278Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q583F4 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
Enkurin domain-containing proteinXC [auth 3Y],
YC [auth 3Z],
ZC [auth 4A]
269Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q583F5 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
PON3AD [auth 4B],
BD [auth 4C],
CD [auth 4D]
420Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q388F3 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
PON4DD [auth 4E],
ED [auth 4F],
FD [auth 4G]
337Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q388F2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
MC7GD [auth 4H]329Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q57YM4 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
FAP96C/MC15HD [auth 4I],
ID [auth 4J]
350Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q57V66 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
FAP96BJD [auth 4K],
KD [auth 4L]
286Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q384B8 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
MOP23ALD [auth 4M],
MD [auth 4N],
ND [auth 4O]
193Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q582N6 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
MOP23BOD [auth 4P]191Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q383L7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
MOP23CPD [auth 4Q]166Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q580D2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
KIAA1430 homologueQD [auth 4R],
RD [auth 4S],
XD [auth 4Y]
161Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q38AV7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
StarmakerSD [auth 4T],
TD [auth 4U],
UD [auth 4V],
VD [auth 4W]
867Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q57ZC1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin alpha chain451Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q4GYY5 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin beta chain442Trypanosoma brucei brucei TREU927Mutation(s): 0 
UniProt
Find proteins for Q4GYY6 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP (Subject of Investigation/LOI)
Query on GTP

Download Ideal Coordinates CCD File 
AEA [auth JL]
AFA [auth KC]
AQ [auth AE]
AR [auth AW]
AU [auth CW]
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
GDP (Subject of Investigation/LOI)
Query on GDP

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ACA [auth IC]
ADA [auth IU]
AGA [auth KT]
AS [auth BN]
AT [auth CE]
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
ZN (Subject of Investigation/LOI)
Query on ZN

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AP [auth 2I]
BP [auth 2K]
CP [auth 2N]
DP [auth 3V]
DY [auth FP]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG (Subject of Investigation/LOI)
Query on MG

Download Ideal Coordinates CCD File 
AAA [auth GT]
ABA [auth HK]
AV [auth DO]
AX [auth EX]
AZ [auth GC]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19.2_4158:

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01GM071940
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI052348

Revision History  (Full details and data files)

  • Version 1.0: 2025-03-12
    Type: Initial release
  • Version 1.1: 2025-03-26
    Changes: Data collection, Database references