8I7O

In situ structure of axonemal doublet microtubules in mouse sperm with 16-nm repeat


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

In-cell structural insight into the stability of sperm microtubule doublet.

Tai, L.Yin, G.Huang, X.Sun, F.Zhu, Y.

(2023) Cell Discov 9: 116-116

  • DOI: https://doi.org/10.1038/s41421-023-00606-3
  • Primary Citation of Related Structures:  
    8I7O, 8I7R

  • PubMed Abstract: 

    The propulsion for mammalian sperm swimming is generated by flagella beating. Microtubule doublets (DMTs) along with microtubule inner proteins (MIPs) are essential structural blocks of flagella. However, the intricate molecular architecture of intact sperm DMT remains elusive. Here, by in situ cryo-electron tomography, we solved the in-cell structure of mouse sperm DMT at 4.5-7.5 Å resolutions, and built its model with 36 kinds of MIPs in 48 nm periodicity. We identified multiple copies of Tektin5 that reinforce Tektin bundle, and multiple MIPs with different periodicities that anchor the Tektin bundle to tubulin wall. This architecture contributes to a superior stability of A-tubule than B-tubule of DMT, which was revealed by structural comparison of DMTs from the intact and deformed axonemes. Our work provides an overall molecular picture of intact sperm DMT in 48 nm periodicity that is essential to understand the molecular mechanism of sperm motility as well as the related ciliopathies.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tektin-1A [auth A2],
B [auth A3]
418Mus musculusMutation(s): 0 
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IMPC:  MGI:1333819
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Detyrosinated tubulin alpha-3 chain438Mus musculusMutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Tubulin beta-4B chain427Mus musculusMutation(s): 0 
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IMPC:  MGI:1915472
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Tektin-2H [auth B2],
I [auth B3],
J [auth B7],
K [auth B8]
430Mus musculusMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Tektin-3490Mus musculusMutation(s): 0 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Tektin-4447Mus musculusMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Tektin bundle-interacting protein 1NA [auth E2],
OA [auth E3]
206Mus musculusMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Tektin-5557Mus musculusMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing protein 1HB [auth G1],
IB [auth G2]
648Mus musculusMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand domain-containing family member C2JB [auth G5]750Mus musculusMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Protein FAM166AQB [auth H3],
RB [auth H4]
319Mus musculusMutation(s): 0 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Protein FAM166CYB [auth I2],
ZB [auth I3]
200Mus musculusMutation(s): 0 
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IMPC:  MGI:1922684
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Dual specificity phosphatase 21FC [auth J2],
GC [auth J3]
189Mus musculusMutation(s): 0 
EC: 3.1.3.16 (PDB Primary Data), 3.1.3.48 (PDB Primary Data)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Coiled-coil domain-containing protein 105MC [auth K2],
NC [auth K3],
OC [auth K4]
499Mus musculusMutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
EnkurinVC [auth L2],
WC [auth L3]
255Mus musculusMutation(s): 0 
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IMPC:  MGI:1918483
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Testis-expressed protein 43DD [auth M2],
ED [auth M3]
141Mus musculusMutation(s): 0 
UniProt
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 276KD [auth N2],
LD [auth N3]
168Mus musculusMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Protein FlattopSD [auth O1],
TD [auth O2]
189Mus musculusMutation(s): 0 
UniProt
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 52AE [auth P1],
BE [auth P2]
620Mus musculusMutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
EF-hand calcium-binding domain-containing protein 6HE [auth Q1],
IE [auth Q2]
1,516Mus musculusMutation(s): 0 
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IMPC:  MGI:1924877
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia and flagella-associated protein 77OE [auth R2]283Mus musculusMutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
Cilia- and flagella-associated protein 20VF [auth XC],
WF [auth XD],
XF [auth XE]
193Mus musculusMutation(s): 0 
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Parkin coregulated gene protein homologAG [auth XL],
YF [auth XJ],
ZF [auth XK]
241Mus musculusMutation(s): 0 
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IMPC:  MGI:1916560
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
Sperm acrosome-associated protein 9168Mus musculusMutation(s): 0 
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Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download Ideal Coordinates CCD File 
AH [auth DH]
AI [auth IH]
AJ [auth NF]
AK [auth SE]
BH [auth ED]
AH [auth DH],
AI [auth IH],
AJ [auth NF],
AK [auth SE],
BH [auth ED],
BI [auth II],
BJ [auth NG],
BK [auth SF],
CH [auth EE],
CI [auth JD],
CJ [auth NH],
CK [auth SG],
DH [auth EF],
DI [auth JE],
DJ [auth NI],
DK [auth SH],
EH [auth EG],
EI [auth JF],
EJ [auth OD],
EK [auth SI],
FH [auth EH],
FI [auth JG],
FJ [auth OE],
FK [auth SJ],
GH [auth FD],
GI [auth JH],
GJ [auth OF],
GK [auth TF],
HG [auth AE],
HH [auth FE],
HI [auth KD],
HJ [auth OG],
HK [auth TG],
IG [auth AF],
IH [auth FF],
II [auth KE],
IJ [auth OH],
IK [auth TH],
JG [auth AG],
JH [auth FF],
JI [auth KF],
JJ [auth OI],
JK [auth TI],
KG [auth AH],
KH [auth FH],
KI [auth KG],
KJ [auth PE],
KK [auth TJ],
LG [auth AI],
LH [auth GD],
LI [auth KH],
LJ [auth PF],
LK [auth UD],
MG [auth BE],
MH [auth GE],
MI [auth KI],
MJ [auth PG],
MK [auth UE],
NG [auth BF],
NH [auth GF],
NI [auth LD],
NJ [auth PH],
NK [auth UF],
OG [auth BG],
OH [auth GG],
OI [auth LE],
OJ [auth PI],
OK [auth UG],
PG [auth BH],
PH [auth GH],
PI [auth LF],
PJ [auth QE],
PK [auth UH],
QG [auth BI],
QH [auth GH],
QI [auth LG],
QJ [auth QF],
QK [auth VD],
RG [auth CF],
RH [auth HD],
RI [auth LH],
RJ [auth QG],
RK [auth VE],
SG [auth CG],
SH [auth HE],
SI [auth LI],
SJ [auth QH],
SK [auth VF],
TG [auth CH],
TH [auth HF],
TI [auth ME],
TJ [auth QI],
TK [auth VG],
UG [auth CI],
UH [auth HG],
UI [auth MF],
UJ [auth RE],
UK [auth VH],
VG [auth CJ],
VH [auth HH],
VI [auth MG],
VJ [auth RF],
VK [auth WE],
WG [auth DD],
WH [auth HI],
WI [auth MH],
WJ [auth RG],
WK [auth WF],
XG [auth DE],
XH [auth IE],
XI [auth MI],
XJ [auth RH],
XK [auth WG],
YG [auth DF],
YH [auth IF],
YI [auth ND],
YJ [auth RI],
YK [auth WH],
ZG [auth DG],
ZH [auth IG],
ZI [auth NE],
ZJ [auth RJ],
ZK [auth WI]
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31925026

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-11
    Type: Initial release
  • Version 1.1: 2023-12-06
    Changes: Database references