9NW3 | pdb_00009nw3

Ciliary tip central pair

  • Classification: PROTEIN BINDING
  • Organism(s): Tetrahymena thermophila CU428
  • Mutation(s): No 

  • Deposited: 2025-03-21 Released: 2025-07-30 
  • Deposition Author(s): Legal, T.L., Bui, K.H.
  • Funding Organization(s): Canadian Institutes of Health Research (CIHR), Natural Sciences and Engineering Research Council (NSERC, Canada)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 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

Structure of the ciliary tip central pair reveals the unique role of the microtubule-seam binding protein SPEF1.

Legal, T.Joachimiak, E.Parra, M.Peng, W.Tam, A.Black, C.Guha, M.Nguyen, C.A.Ghanaeian, A.Valente-Paterno, M.Brouhard, G.Gaertig, J.Wloga, D.Bui, K.H.

(2025) Curr Biol 35: 3404-3417.e6

  • DOI: https://doi.org/10.1016/j.cub.2025.06.020
  • Primary Citation of Related Structures:  
    9NTM, 9NW3, 9OT2

  • PubMed Abstract: 

    Motile cilia are unique organelles with the ability to move autonomously. The force generated by beating cilia propels cells and moves fluids. The ciliary skeleton is made of peripheral doublet microtubules and a central pair (CP) with a distinct structure at the tip. In this study, we present a high-resolution structure of the CP in the ciliary tip of the ciliate Tetrahymena thermophila and identify several tip proteins that bind and form unique patterns on both microtubules of the tip CP. Two of those proteins that contain tubulin polymerization-promoting protein (TPPP)-like domains, TLP1 and TLP2, bind to high curvature regions of the microtubule. TLP2, which contains two TPPP-like domains, is an unusually long protein that wraps laterally around half a microtubule and forms the bridge between the two microtubules. Moreover, we found that the conserved protein SPEF1 binds to both microtubule seams and crosslinked the two microtubules. In vitro, human SPEF1 binds to the microtubule seam as visualized by cryoelectron tomography and subtomogram averaging. Single-molecule microtubule dynamics assays indicate that SPEF1 stabilizes microtubules in vitro. Together, these data show that the proteins in the tip CP maintain stable microtubule structures and play important roles in maintaining the integrity of the axoneme.


  • Organizational Affiliation
    • Department of Anatomy and Cell Biology, McGill University, 3640 Rue University, Montreal, QC H3A 0C7, Canada.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin alpha chain449Tetrahymena thermophila CU428Mutation(s): 0 
EC: 3.6.5
UniProt
Find proteins for P41351 (Tetrahymena thermophila)
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UniProt GroupP41351
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin beta chain443Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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UniProt GroupP41352
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Sperm flagellar proteinAC [auth 1A],
BC [auth 1B],
CC [auth 1C]
213Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
TLP1DC [auth 2A],
EC [auth 2B],
FC [auth 2C]
742Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
C2 domain proteinGC [auth 3A],
HC [auth 3B],
IC [auth 3C]
495Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
Find proteins for Q246A0 (Tetrahymena thermophila (strain SB210))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
CFAP213JC [auth 4A],
KC [auth 4B],
LC [auth 4C],
MC [auth 4D]
317Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
TLP2NC [auth 5A],
OC [auth 5B],
PC [auth 5C]
1,754Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Cation channel family proteinQC [auth 6A],
RC [auth 6B],
SC [auth 6C]
346Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Dpy-30 motif protein101Tetrahymena thermophila CU428Mutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Unknown38Tetrahymena thermophila CU428Mutation(s): 0 
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Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download Ideal Coordinates CCD File 
AE [auth AA]
AH [auth IE]
BF [auth DA]
BI [auth LE]
CG [auth GA]
AE [auth AA],
AH [auth IE],
BF [auth DA],
BI [auth LE],
CG [auth GA],
DE [auth AC],
DH [auth JA],
EF [auth DC],
EI [auth MA],
FG [auth GC],
GE [auth AE],
GH [auth JC],
HF [auth DE],
HI [auth MC],
IG [auth GE],
JE [auth BA],
JH [auth JE],
KF [auth EA],
KI [auth ME],
LG [auth HA],
ME [auth BC],
MH [auth KA],
NF [auth EC],
OG [auth HC],
PE [auth BE],
PH [auth KC],
QF [auth EE],
RG [auth HE],
SE [auth CA],
SH [auth KE],
TF [auth FA],
UG [auth IA],
VE [auth CC],
VH [auth LA],
WF [auth FC],
XG [auth IC],
YE [auth CE],
YH [auth LC],
ZF [auth FE]
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
GDP
Query on GDP

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AF [auth CF]
AI [auth LD]
BG [auth FF]
CE [auth AB]
CH [auth IF]
AF [auth CF],
AI [auth LD],
BG [auth FF],
CE [auth AB],
CH [auth IF],
DF [auth DB],
DI [auth LF],
EG [auth GB],
FE [auth AD],
FH [auth JB],
GF [auth DD],
GI [auth MB],
HG [auth GD],
IE [auth AF],
IH [auth JD],
JF [auth DF],
JI [auth MD],
KG [auth GF],
LE [auth BB],
LH [auth JF],
MF [auth EB],
MI [auth MF],
NG [auth HB],
OE [auth BD],
OH [auth KB],
PF [auth ED],
QG [auth HD],
RE [auth BF],
RH [auth KD],
SF [auth EF],
TG [auth HF],
UE [auth CB],
UH [auth KF],
VF [auth FB],
WG [auth IB],
XE [auth CD],
XH [auth LB],
YF [auth FD],
ZG [auth ID]
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG
Query on MG

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AG [auth FE]
BE [auth AA]
BH [auth IE]
CF [auth DA]
CI [auth LE]
AG [auth FE],
BE [auth AA],
BH [auth IE],
CF [auth DA],
CI [auth LE],
DG [auth GA],
EE [auth AC],
EH [auth JA],
FF [auth DC],
FI [auth MB],
GG [auth GC],
HE [auth AE],
HH [auth JC],
IF [auth DE],
II [auth MD],
JG [auth GE],
KE [auth BA],
KH [auth JE],
LF [auth EA],
LI [auth MF],
MG [auth HA],
NE [auth BC],
NH [auth KA],
OF [auth ED],
PG [auth HC],
QE [auth BE],
QH [auth KC],
RF [auth EE],
SG [auth HE],
TE [auth CA],
TH [auth KE],
UF [auth FB],
VG [auth IA],
WE [auth CC],
WH [auth LA],
XF [auth FD],
YG [auth IC],
ZE [auth CE],
ZH [auth LC]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)CanadaPJT-156354
Natural Sciences and Engineering Research Council (NSERC, Canada)CanadaRGPIN-2022-04774

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-30
    Type: Initial release
  • Version 1.1: 2025-08-06
    Changes: Data collection, Database references