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- PDB-9ijj: In situ structure of the central apparatus in mouse sperm axoneme. -

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Basic information

Entry
Database: PDB / ID: 9ijj
TitleIn situ structure of the central apparatus in mouse sperm axoneme.
Components
  • (Cilia and flagella associated protein ...) x 2
  • (Cilia- and flagella-associated protein ...) x 8
  • (Leucine-rich repeat and ...) x 2
  • (Sperm-associated antigen ...) x 3
  • (Spermatogenesis-associated protein ...) x 2
  • Ankyrin repeat and MYND domain-containing protein 1
  • Calmodulin-1
  • Cilia and flagella-associated protein 47
  • Coiled-coil domain containing 180
  • Deleted in lung and esophageal cancer 1
  • G protein-coupled receptor kinase 3
  • Germ cell-less protein-like 1
  • Hydrocephalus-inducing protein
  • Kinesin-like protein KIF9
  • Leucine rich repeat containing 72
  • Leucine-rich repeat-containing protein 43
  • MORN repeat containing 2
  • MYCBP-associated protein
  • Microtubule-associated protein 1S
  • Protein FAM228B
  • Protein dpy-30 homolog
  • Putative aspartate aminotransferase, cytoplasmic 2
  • Serine/threonine-protein phosphatase PP1-gamma catalytic subunit
  • Sperm acrosome-associated protein 9
  • Sperm flagellar protein 2
  • Tubulin alpha-3 chain
  • Tubulin beta-4B chain
  • Unknown1
  • Unknown2
  • Unknown3
  • Unknown4
  • Unknown5
  • Unknown6
KeywordsPROTEIN TRANSPORT / microtubules / axoneme / sperm / filament
Function / homology
Function and homology information


substrate-dependent cell migration, cell attachment to substrate / cell motility in response to calcium ion / intramanchette transport / maintenance of cell number / axonemal central pair projection / regulation of establishment of planar polarity / axonemal central apparatus / regulation of cilium beat frequency / male germ-line stem cell population maintenance / respiratory system development ...substrate-dependent cell migration, cell attachment to substrate / cell motility in response to calcium ion / intramanchette transport / maintenance of cell number / axonemal central pair projection / regulation of establishment of planar polarity / axonemal central apparatus / regulation of cilium beat frequency / male germ-line stem cell population maintenance / respiratory system development / positive regulation of fertilization / lateral wall of outer hair cell / mucociliary clearance / axonemal microtubule doublet inner sheath / Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane / Cilium Assembly / Sealing of the nuclear envelope (NE) by ESCRT-III / axonemal central apparatus assembly / sperm flagellum assembly / radial spoke / manchette assembly / axonemal B tubule inner sheath / CaMK IV-mediated phosphorylation of CREB / Cam-PDE 1 activation / CREB1 phosphorylation through the activation of CaMKII/CaMKK/CaMKIV cascasde / Glycogen breakdown (glycogenolysis) / Activation of RAC1 downstream of NMDARs / Reduction of cytosolic Ca++ levels / Sodium/Calcium exchangers / Activation of Ca-permeable Kainate Receptor / positive regulation of flagellated sperm motility / Intraflagellar transport / manchette / Carboxyterminal post-translational modifications of tubulin / regulation of flagellated sperm motility / Synthesis of IP3 and IP4 in the cytosol / CLEC7A (Dectin-1) induces NFAT activation / RHO GTPases activate PAKs / Calmodulin induced events / Inactivation, recovery and regulation of the phototransduction cascade / Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation / eNOS activation / Ion transport by P-type ATPases / sperm axoneme assembly / protein polyglutamylation / trachea development / outer dynein arm / beta-adrenergic-receptor kinase / positive regulation of feeding behavior / Calcineurin activates NFAT / COPI-independent Golgi-to-ER retrograde traffic / Unblocking of NMDA receptors, glutamate binding and activation / Protein methylation / olfactory behavior / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / beta-adrenergic receptor kinase activity / cerebrospinal fluid circulation / sperm principal piece / G protein-coupled receptor kinase activity / regulation of cilium beat frequency involved in ciliary motility / Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal / epithelial cilium movement involved in extracellular fluid movement / RAF activation / microtubule anchoring at centrosome / cilium movement involved in cell motility / response to odorant / COPI-mediated anterograde transport / VEGFR2 mediated vascular permeability / Aggrephagy / sperm head-tail coupling apparatus / RAS processing / Kinesins / 9+2 motile cilium / metaphase chromosome alignment / PTW/PP1 phosphatase complex / G alpha (s) signalling events / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / acrosomal membrane / microtubule sliding / Resolution of Sister Chromatid Cohesion / PKR-mediated signaling / The role of GTSE1 in G2/M progression after G2 checkpoint / cilium movement / FCERI mediated Ca+2 mobilization / Ca2+ pathway / RHO GTPases activate IQGAPs / Recycling pathway of L1 / axoneme assembly / motile cilium assembly / Extra-nuclear estrogen signaling / RAF/MAP kinase cascade / regulation of nucleocytoplasmic transport / COPI-dependent Golgi-to-ER retrograde traffic / PKA activation / RHO GTPases Activate Formins / axonemal microtubule / Separation of Sister Chromatids / cilium organization / Hedgehog 'off' state
Similarity search - Function
Germ cell-less protein-like / : / : / DLEC1 sixth Ig-like domain / Microtubule-associated protein 1B N-terminal / CFAP74 second Ig-like domain / Microtubule associated protein 1 / : / Kinesin-like protein KIF9 domain / Hydin adenylate kinase-like domain ...Germ cell-less protein-like / : / : / DLEC1 sixth Ig-like domain / Microtubule-associated protein 1B N-terminal / CFAP74 second Ig-like domain / Microtubule associated protein 1 / : / Kinesin-like protein KIF9 domain / Hydin adenylate kinase-like domain / Hydin Adenylate kinase-like domain / Sperm-associated antigen 17 / Cilia- and flagella-associated protein 54 / Domain of unknown function DUF4456 / Domain of unknown function DUF4455 / Primary ciliary dyskinesia protein 1 / MYCBP-associated protein / Flagellar C1a complex subunit C1a-32 / Deleted in lung and esophageal cancer protein 1 / Cilia- and flagella-associated protein 99 / Cilia- and flagella-associated protein 46 / Protein FAM228 / Leucine-rich repeat-containing protein 72 / : / : / : / : / : / : / : / : / : / : / : / : / : / Domain of unknown function (DUF4455) / Domain of unknown function (DUF4456) / MYCBP-associated protein family / Flagellar C1a complex subunit C1a-32 / Cilia- and flagella-associated protein 54 / Flagellar-associated PapD-like / Cilia- and flagella-associated protein 69, ARM repeat / CPC1/SPEF2 domain D5 / Deleted in lung and esophageal cancer protein 1 Ig domain / SPEF2 C-terminal domain / Cilia- and flagella-associated protein 65-like, Ig-like domain / Cilia- and flagella-associated protein 47 domain / CFAP74 third Ig-like domain / CFAP74 forth Ig-like domain / Cilia- and flagella-associated protein 65-like, Ig-like domain / : / : / Hydrocephalus-inducing-like / : / HYDIN/CFA65/VesB-like, Ig-like domain / CFAP74 first Ig-like domain / CH-like domain in sperm protein / CH-like domain in sperm protein / CFAP65, fourth Ig-like domain / : / : / : / Sperm acrosome-associated protein 9 / Sperm acrosome-associated protein 9 / Sdc1/DPY30 / Dpy-30 motif / Dpy-30 motif / Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases. / CFA20 domain / Cilia- and flagella-associated protein 20/CFAP20DC / CFA20 domain / GPCR kinase / Serine-threonine protein phosphatase, N-terminal / : / Serine-threonine protein phosphatase N-terminal domain / MORN motif / MORN repeat / PapD-like superfamily / Adenylate kinase / : / MYND finger / Zinc finger MYND-type signature. / Zinc finger, MYND-type / Zinc finger MYND-type profile. / Regulator of G protein signaling domain / Aspartate/other aminotransferase / RGS domain / RGS domain profile. / Regulator of G protein signalling domain / RGS domain superfamily / Serine/threonine specific protein phosphatases signature. / Protein phosphatase 2A homologues, catalytic domain. / Kinesin-like protein / Leucine-rich repeat / IQ calmodulin-binding motif / Ankyrin repeats (many copies) / Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase / : / Leucine-rich repeat region
Similarity search - Domain/homology
Cilia and flagella-associated protein 47 / Cilia and flagella associated protein 99 / Leucine rich repeat containing 72 / MORN repeat containing 2 / Cilia- and flagella-associated protein 221 / Cilia- and flagella-associated protein 70 / Cilia and flagella associated protein 46 / Deleted in lung and esophageal cancer 1 / Coiled-coil domain containing 180 / Tubulin alpha-3 chain ...Cilia and flagella-associated protein 47 / Cilia and flagella associated protein 99 / Leucine rich repeat containing 72 / MORN repeat containing 2 / Cilia- and flagella-associated protein 221 / Cilia- and flagella-associated protein 70 / Cilia and flagella associated protein 46 / Deleted in lung and esophageal cancer 1 / Coiled-coil domain containing 180 / Tubulin alpha-3 chain / Calmodulin-1 / Serine/threonine-protein phosphatase PP1-gamma catalytic subunit / Tubulin beta-4B chain / Cilia- and flagella-associated protein 74 / G protein-coupled receptor kinase 3 / Cilia- and flagella-associated protein 65 / Leucine-rich repeat-containing protein 43 / Protein FAM228B / Sperm-associated antigen 17 / MYCBP-associated protein / Cilia- and flagella-associated protein 119 / Sperm acrosome-associated protein 9 / Putative aspartate aminotransferase, cytoplasmic 2 / Hydrocephalus-inducing protein / Cilia- and flagella-associated protein 69 / Cilia- and flagella-associated protein 20 / Microtubule-associated protein 1S / Leucine-rich repeat and death domain-containing protein 1 / Ankyrin repeat and MYND domain-containing protein 1 / Cilia- and flagella-associated protein 54 / Sperm flagellar protein 2 / Spermatogenesis-associated protein 4 / Sperm-associated antigen 16 protein / Germ cell-less protein-like 1 / Protein dpy-30 homolog / Spermatogenesis-associated protein 17 / Leucine-rich repeat and guanylate kinase domain-containing protein / Sperm-associated antigen 6 / Kinesin-like protein KIF9
Similarity search - Component
Biological speciesMus musculus (house mouse)
MethodELECTRON MICROSCOPY / subtomogram averaging / cryo EM / Resolution: 7.7 Å
AuthorsZhu, Y. / Yin, G. / Sun, F.
Funding support China, 1items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)31925026 China
CitationJournal: To Be Published
Title: Cryo-EM structure of the native central apparatus in mouse sperm axoneme
Authors: Zhu, Y. / Yin, G.L. / Sun, F.
History
DepositionJun 23, 2024Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Jun 4, 2025Provider: repository / Type: Initial release
Revision 1.0Jun 4, 2025Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0Jun 4, 2025Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0Jun 4, 2025Data content type: Primary map / Data content type: Primary map / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
b: Spermatogenesis-associated protein 4
c: Kinesin-like protein KIF9
d: Kinesin-like protein KIF9
e: Kinesin-like protein KIF9
f: Kinesin-like protein KIF9
g: Kinesin-like protein KIF9
h: Cilia- and flagella-associated protein 65
i: Cilia- and flagella-associated protein 65
j: Cilia- and flagella-associated protein 65
k: Cilia- and flagella-associated protein 70
a: Spermatogenesis-associated protein 4
n: Cilia- and flagella-associated protein 70
o: Cilia- and flagella-associated protein 70
p: Cilia- and flagella-associated protein 70
q: Protein FAM228B
r: Protein FAM228B
s: Protein FAM228B
t: Cilia- and flagella-associated protein 20
u: Cilia- and flagella-associated protein 20
v: MYCBP-associated protein
w: MYCBP-associated protein
m: Cilia- and flagella-associated protein 70
A: Cilia and flagella associated protein 46
B: Cilia and flagella associated protein 46
C: Cilia- and flagella-associated protein 74
D: Cilia- and flagella-associated protein 74
E: Cilia- and flagella-associated protein 74
F: Coiled-coil domain containing 180
G: Coiled-coil domain containing 180
H: Cilia- and flagella-associated protein 54
I: Cilia- and flagella-associated protein 54
L: Cilia- and flagella-associated protein 221
M: Leucine rich repeat containing 72
O: Deleted in lung and esophageal cancer 1
P: Deleted in lung and esophageal cancer 1
Q: Sperm-associated antigen 16 protein
R: Sperm-associated antigen 16 protein
S: Sperm-associated antigen 16 protein
T: Sperm-associated antigen 16 protein
U: Sperm-associated antigen 16 protein
V: Sperm-associated antigen 16 protein
W: Spermatogenesis-associated protein 4
X: Spermatogenesis-associated protein 4
Y: Spermatogenesis-associated protein 4
Z: Spermatogenesis-associated protein 4
x: Sperm-associated antigen 17
y: Sperm-associated antigen 17
z: Sperm-associated antigen 17
l: Cilia- and flagella-associated protein 70
Ab: Tubulin beta-4B chain
Ac: Tubulin alpha-3 chain
Ad: Tubulin beta-4B chain
Ae: Tubulin alpha-3 chain
Af: Tubulin beta-4B chain
Ag: Tubulin alpha-3 chain
Ah: Tubulin beta-4B chain
Ai: Tubulin alpha-3 chain
Aj: Tubulin beta-4B chain
Ak: Tubulin alpha-3 chain
Bb: Tubulin beta-4B chain
Bc: Tubulin alpha-3 chain
Bd: Tubulin beta-4B chain
Be: Tubulin alpha-3 chain
Bf: Tubulin beta-4B chain
Bg: Tubulin alpha-3 chain
Bh: Tubulin beta-4B chain
Bi: Tubulin alpha-3 chain
Bj: Tubulin beta-4B chain
Bk: Tubulin alpha-3 chain
Cb: Tubulin beta-4B chain
Cc: Tubulin alpha-3 chain
Cd: Tubulin beta-4B chain
Ce: Tubulin alpha-3 chain
Cf: Tubulin beta-4B chain
Cg: Tubulin alpha-3 chain
Ch: Tubulin beta-4B chain
Ci: Tubulin alpha-3 chain
Cj: Tubulin beta-4B chain
Ck: Tubulin alpha-3 chain
Db: Tubulin beta-4B chain
Dc: Tubulin alpha-3 chain
Dd: Tubulin beta-4B chain
De: Tubulin alpha-3 chain
Df: Tubulin beta-4B chain
Dg: Tubulin alpha-3 chain
Dh: Tubulin beta-4B chain
Di: Tubulin alpha-3 chain
Dj: Tubulin beta-4B chain
Dk: Tubulin alpha-3 chain
Eb: Tubulin beta-4B chain
Ec: Tubulin alpha-3 chain
Ed: Tubulin beta-4B chain
Ee: Tubulin alpha-3 chain
Ef: Tubulin beta-4B chain
Eg: Tubulin alpha-3 chain
Eh: Tubulin beta-4B chain
Ei: Tubulin alpha-3 chain
Ej: Tubulin beta-4B chain
Ek: Tubulin alpha-3 chain
Fa: Tubulin alpha-3 chain
Fb: Tubulin beta-4B chain
Fc: Tubulin alpha-3 chain
Fd: Tubulin beta-4B chain
Fe: Tubulin alpha-3 chain
Ff: Tubulin beta-4B chain
Fg: Tubulin alpha-3 chain
Fh: Tubulin beta-4B chain
Fi: Tubulin alpha-3 chain
Fj: Tubulin beta-4B chain
Ga: Tubulin alpha-3 chain
Gb: Tubulin beta-4B chain
Gc: Tubulin alpha-3 chain
Gd: Tubulin beta-4B chain
Ge: Tubulin alpha-3 chain
Gf: Tubulin beta-4B chain
Gg: Tubulin alpha-3 chain
Gh: Tubulin beta-4B chain
Gi: Tubulin alpha-3 chain
Gj: Tubulin beta-4B chain
Ha: Tubulin alpha-3 chain
Hb: Tubulin beta-4B chain
Hc: Tubulin alpha-3 chain
Hd: Tubulin beta-4B chain
He: Tubulin alpha-3 chain
Hf: Tubulin beta-4B chain
Hg: Tubulin alpha-3 chain
Hh: Tubulin beta-4B chain
Hi: Tubulin alpha-3 chain
Hj: Tubulin beta-4B chain
Ia: Tubulin alpha-3 chain
Ib: Tubulin beta-4B chain
Ic: Tubulin alpha-3 chain
Id: Tubulin beta-4B chain
Ie: Tubulin alpha-3 chain
If: Tubulin beta-4B chain
Ig: Tubulin alpha-3 chain
Ih: Tubulin beta-4B chain
Ii: Tubulin alpha-3 chain
Ij: Tubulin beta-4B chain
Ja: Tubulin alpha-3 chain
Jb: Tubulin beta-4B chain
Jc: Tubulin alpha-3 chain
Jd: Tubulin beta-4B chain
Je: Tubulin alpha-3 chain
Jf: Tubulin beta-4B chain
Jg: Tubulin alpha-3 chain
Jh: Tubulin beta-4B chain
Ji: Tubulin alpha-3 chain
Jj: Tubulin beta-4B chain
Kb: Tubulin beta-4B chain
Kc: Tubulin alpha-3 chain
Kd: Tubulin beta-4B chain
Ke: Tubulin alpha-3 chain
Kf: Tubulin beta-4B chain
Kg: Tubulin alpha-3 chain
Kh: Tubulin beta-4B chain
Ki: Tubulin alpha-3 chain
Kj: Tubulin beta-4B chain
Kk: Tubulin alpha-3 chain
Lb: Tubulin beta-4B chain
Lc: Tubulin alpha-3 chain
Ld: Tubulin beta-4B chain
Le: Tubulin alpha-3 chain
Lf: Tubulin beta-4B chain
Lg: Tubulin alpha-3 chain
Lh: Tubulin beta-4B chain
Li: Tubulin alpha-3 chain
Lj: Tubulin beta-4B chain
Lk: Tubulin alpha-3 chain
Mb: Tubulin beta-4B chain
Mc: Tubulin alpha-3 chain
Md: Tubulin beta-4B chain
Me: Tubulin alpha-3 chain
Mf: Tubulin beta-4B chain
Mg: Tubulin alpha-3 chain
Mh: Tubulin beta-4B chain
Mi: Tubulin alpha-3 chain
Mj: Tubulin beta-4B chain
Mk: Tubulin alpha-3 chain
An: Tubulin beta-4B chain
Ao: Tubulin alpha-3 chain
Ap: Tubulin beta-4B chain
Aq: Tubulin alpha-3 chain
Ar: Tubulin beta-4B chain
As: Tubulin alpha-3 chain
At: Tubulin beta-4B chain
Au: Tubulin alpha-3 chain
Av: Tubulin beta-4B chain
Aw: Tubulin alpha-3 chain
Bn: Tubulin beta-4B chain
Bo: Tubulin alpha-3 chain
Bp: Tubulin beta-4B chain
Bq: Tubulin alpha-3 chain
Br: Tubulin beta-4B chain
Bs: Tubulin alpha-3 chain
Bt: Tubulin beta-4B chain
Bu: Tubulin alpha-3 chain
Bv: Tubulin beta-4B chain
Bm: Tubulin alpha-3 chain
Cn: Tubulin beta-4B chain
Co: Tubulin alpha-3 chain
Cp: Tubulin beta-4B chain
Cq: Tubulin alpha-3 chain
Cr: Tubulin beta-4B chain
Cs: Tubulin alpha-3 chain
Ct: Tubulin beta-4B chain
Cu: Tubulin alpha-3 chain
Cv: Tubulin beta-4B chain
Cm: Tubulin alpha-3 chain
Dn: Tubulin beta-4B chain
Do: Tubulin alpha-3 chain
Dp: Tubulin beta-4B chain
Dq: Tubulin alpha-3 chain
Dr: Tubulin beta-4B chain
Ds: Tubulin alpha-3 chain
Dt: Tubulin beta-4B chain
Du: Tubulin alpha-3 chain
Dv: Tubulin beta-4B chain
Dm: Tubulin alpha-3 chain
En: Tubulin beta-4B chain
Eo: Tubulin alpha-3 chain
Ep: Tubulin beta-4B chain
Eq: Tubulin alpha-3 chain
Er: Tubulin beta-4B chain
Es: Tubulin alpha-3 chain
Et: Tubulin beta-4B chain
Eu: Tubulin alpha-3 chain
Ev: Tubulin beta-4B chain
Em: Tubulin alpha-3 chain
Fo: Tubulin alpha-3 chain
Fp: Tubulin beta-4B chain
Fq: Tubulin alpha-3 chain
Fr: Tubulin beta-4B chain
Fs: Tubulin alpha-3 chain
Ft: Tubulin beta-4B chain
Fu: Tubulin alpha-3 chain
Fv: Tubulin beta-4B chain
Fw: Tubulin alpha-3 chain
Fn: Tubulin beta-4B chain
Go: Tubulin alpha-3 chain
Gp: Tubulin beta-4B chain
Gq: Tubulin alpha-3 chain
Gr: Tubulin beta-4B chain
Gs: Tubulin alpha-3 chain
Gt: Tubulin beta-4B chain
Gu: Tubulin alpha-3 chain
Gv: Tubulin beta-4B chain
Gw: Tubulin alpha-3 chain
Gn: Tubulin beta-4B chain
Ho: Tubulin alpha-3 chain
Hp: Tubulin beta-4B chain
Hq: Tubulin alpha-3 chain
Hr: Tubulin beta-4B chain
Hs: Tubulin alpha-3 chain
Ht: Tubulin beta-4B chain
Hu: Tubulin alpha-3 chain
Hv: Tubulin beta-4B chain
Hw: Tubulin alpha-3 chain
Hn: Tubulin beta-4B chain
Io: Tubulin alpha-3 chain
Ip: Tubulin beta-4B chain
Iq: Tubulin alpha-3 chain
Ir: Tubulin beta-4B chain
Is: Tubulin alpha-3 chain
It: Tubulin beta-4B chain
Iu: Tubulin alpha-3 chain
Iv: Tubulin beta-4B chain
Iw: Tubulin alpha-3 chain
In: Tubulin beta-4B chain
Jo: Tubulin alpha-3 chain
Jp: Tubulin beta-4B chain
Jq: Tubulin alpha-3 chain
Jr: Tubulin beta-4B chain
Js: Tubulin alpha-3 chain
Jt: Tubulin beta-4B chain
Ju: Tubulin alpha-3 chain
Jv: Tubulin beta-4B chain
Jw: Tubulin alpha-3 chain
Jn: Tubulin beta-4B chain
Kn: Tubulin beta-4B chain
Ko: Tubulin alpha-3 chain
Kp: Tubulin beta-4B chain
Kq: Tubulin alpha-3 chain
Kr: Tubulin beta-4B chain
Ks: Tubulin alpha-3 chain
Kt: Tubulin beta-4B chain
Ku: Tubulin alpha-3 chain
Kv: Tubulin beta-4B chain
Km: Tubulin alpha-3 chain
Ln: Tubulin beta-4B chain
Lo: Tubulin alpha-3 chain
Lp: Tubulin beta-4B chain
Lq: Tubulin alpha-3 chain
Lr: Tubulin beta-4B chain
Ls: Tubulin alpha-3 chain
Lt: Tubulin beta-4B chain
Lu: Tubulin alpha-3 chain
Lv: Tubulin beta-4B chain
Lm: Tubulin alpha-3 chain
Mn: Tubulin beta-4B chain
Mo: Tubulin alpha-3 chain
Mp: Tubulin beta-4B chain
Mq: Tubulin alpha-3 chain
Mr: Tubulin beta-4B chain
Ms: Tubulin alpha-3 chain
Mt: Tubulin beta-4B chain
Mu: Tubulin alpha-3 chain
Mv: Tubulin beta-4B chain
Mm: Tubulin alpha-3 chain
AA: Sperm-associated antigen 6
AB: Sperm-associated antigen 6
AC: Sperm-associated antigen 6
AD: Sperm-associated antigen 6
AE: Sperm-associated antigen 6
AF: Sperm-associated antigen 6
AG: Sperm-associated antigen 6
AH: Sperm-associated antigen 6
AI: Sperm-associated antigen 6
AJ: Sperm-associated antigen 6
AK: Sperm-associated antigen 6
AL: Sperm-associated antigen 6
AM: Sperm-associated antigen 6
AN: Sperm-associated antigen 6
AO: Sperm-associated antigen 6
AP: Sperm-associated antigen 6
AQ: Sperm-associated antigen 6
AR: Sperm-associated antigen 6
AS: Sperm-associated antigen 6
AT: Sperm-associated antigen 6
AU: Sperm-associated antigen 6
AV: Sperm-associated antigen 6
AW: Sperm-associated antigen 6
3D: Calmodulin-1
AX: Sperm-associated antigen 6
AY: Sperm-associated antigen 6
AZ: Sperm-associated antigen 6
A1: Sperm-associated antigen 6
A2: Cilia- and flagella-associated protein 69
A3: Cilia- and flagella-associated protein 69
A4: Cilia- and flagella-associated protein 69
1A: Sperm acrosome-associated protein 9
1B: Sperm acrosome-associated protein 9
1C: Sperm acrosome-associated protein 9
1D: Sperm acrosome-associated protein 9
1G: Sperm acrosome-associated protein 9
1I: Sperm acrosome-associated protein 9
1E: Sperm acrosome-associated protein 9
1F: Sperm acrosome-associated protein 9
1J: Sperm acrosome-associated protein 9
1K: Sperm acrosome-associated protein 9
1L: Sperm acrosome-associated protein 9
1M: Sperm acrosome-associated protein 9
1N: Sperm acrosome-associated protein 9
1O: Sperm acrosome-associated protein 9
1P: Sperm acrosome-associated protein 9
1Q: Sperm acrosome-associated protein 9
1R: Sperm acrosome-associated protein 9
1S: Sperm acrosome-associated protein 9
1T: Sperm acrosome-associated protein 9
1U: Sperm acrosome-associated protein 9
1V: Sperm acrosome-associated protein 9
1W: Sperm acrosome-associated protein 9
1X: Sperm acrosome-associated protein 9
1Y: Sperm acrosome-associated protein 9
1Z: Sperm acrosome-associated protein 9
1a: Sperm acrosome-associated protein 9
1b: Sperm acrosome-associated protein 9
1c: Sperm acrosome-associated protein 9
1d: Sperm acrosome-associated protein 9
3X: Protein dpy-30 homolog
3Y: Protein dpy-30 homolog
3V: Protein dpy-30 homolog
3W: Protein dpy-30 homolog
3T: Protein dpy-30 homolog
3U: Protein dpy-30 homolog
3A: Unknown1
3B: Spermatogenesis-associated protein 17
3E: Calmodulin-1
3F: Calmodulin-1
3G: Calmodulin-1
3K: Cilia- and flagella-associated protein 119
3L: Cilia- and flagella-associated protein 119
3Q: MORN repeat containing 2
3C: Spermatogenesis-associated protein 17
3H: Calmodulin-1
3I: Calmodulin-1
3J: Calmodulin-1
3M: Cilia- and flagella-associated protein 119
3N: Cilia- and flagella-associated protein 119
3R: MORN repeat containing 2
3O: Cilia- and flagella-associated protein 119
3P: Cilia- and flagella-associated protein 119
3S: MORN repeat containing 2
3Z: Unknown2
3a: Unknown2
3b: Unknown3
3c: Unknown3
3d: Unknown3
3e: Unknown4
3f: Unknown5
3g: Unknown6
4A: Cilia and flagella-associated protein 47
4B: Cilia and flagella-associated protein 47
4G: Hydrocephalus-inducing protein
4H: Hydrocephalus-inducing protein
4I: Hydrocephalus-inducing protein
4J: Hydrocephalus-inducing protein
4K: Hydrocephalus-inducing protein
4C: Germ cell-less protein-like 1
4D: Germ cell-less protein-like 1
4E: Germ cell-less protein-like 1
4F: Germ cell-less protein-like 1
4M: Sperm flagellar protein 2
4P: Leucine-rich repeat and guanylate kinase domain-containing protein
4N: Sperm flagellar protein 2
4Q: Leucine-rich repeat and guanylate kinase domain-containing protein
4L: Sperm flagellar protein 2
4O: Leucine-rich repeat and guanylate kinase domain-containing protein
4R: Putative aspartate aminotransferase, cytoplasmic 2
4S: Putative aspartate aminotransferase, cytoplasmic 2
4T: Putative aspartate aminotransferase, cytoplasmic 2
4U: Putative aspartate aminotransferase, cytoplasmic 2
4V: Putative aspartate aminotransferase, cytoplasmic 2
4W: Putative aspartate aminotransferase, cytoplasmic 2
4X: Leucine-rich repeat and death domain-containing protein 1
4Y: Leucine-rich repeat and death domain-containing protein 1
4Z: G protein-coupled receptor kinase 3
4a: Serine/threonine-protein phosphatase PP1-gamma catalytic subunit
2A: Sperm acrosome-associated protein 9
2D: Sperm acrosome-associated protein 9
2B: Sperm acrosome-associated protein 9
2C: Sperm acrosome-associated protein 9
2F: Sperm acrosome-associated protein 9
2E: Sperm acrosome-associated protein 9
2G: Sperm acrosome-associated protein 9
2H: Sperm acrosome-associated protein 9
2I: Sperm acrosome-associated protein 9
2J: Sperm acrosome-associated protein 9
2K: Sperm acrosome-associated protein 9
2L: Sperm acrosome-associated protein 9
2M: Sperm acrosome-associated protein 9
2N: Sperm acrosome-associated protein 9
2O: Sperm acrosome-associated protein 9
2P: Sperm acrosome-associated protein 9
2Q: Sperm acrosome-associated protein 9
2R: Sperm acrosome-associated protein 9
2S: Sperm acrosome-associated protein 9
2T: Sperm acrosome-associated protein 9
2U: Sperm acrosome-associated protein 9
2V: Sperm acrosome-associated protein 9
4b: Microtubule-associated protein 1S
4c: Microtubule-associated protein 1S
1e: Sperm acrosome-associated protein 9
1f: Sperm acrosome-associated protein 9
1g: Sperm acrosome-associated protein 9
1h: Sperm acrosome-associated protein 9
1i: Sperm acrosome-associated protein 9
1j: Sperm acrosome-associated protein 9
1k: Sperm acrosome-associated protein 9
J: Cilia and flagella associated protein 99
K: Cilia and flagella associated protein 99
5A: Cilia and flagella associated protein 99
5B: Ankyrin repeat and MYND domain-containing protein 1
5C: Leucine-rich repeat-containing protein 43


Theoretical massNumber of molelcules
Total (without water)28,871,569464
Polymers28,871,569464
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

-
Spermatogenesis-associated protein ... , 2 types, 8 molecules baWXYZ3B3C

#1: Protein
Spermatogenesis-associated protein 4 / Spermatogenesis-related gene 2 protein / Testis and spermatogenesis cell-related protein 2 / Testis ...Spermatogenesis-related gene 2 protein / Testis and spermatogenesis cell-related protein 2 / Testis spermatocyte apoptosis-related gene 2 protein


Mass: 33629.938 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8K3V1
#25: Protein Spermatogenesis-associated protein 17 / Spermatogenesis-related protein 11


Mass: 45579.160 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q9D552

+
Protein , 26 types, 382 molecules cdefgqrsvwFGMOPAbAdAfAhAjBbBdBfBhBjCbCdCfChCj...

#2: Protein
Kinesin-like protein KIF9


Mass: 90023.070 Da / Num. of mol.: 5 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q9WV04
#5: Protein Protein FAM228B


Mass: 27875.152 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q497Q6
#7: Protein MYCBP-associated protein / AMAM-1 / AMY-1-binding protein 1 / AMAP-1


Mass: 106611.914 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q5SUV2
#10: Protein Coiled-coil domain containing 180


Mass: 196116.328 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: J3QNE4
#13: Protein Leucine rich repeat containing 72


Mass: 33759.270 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: A0A1Y7VMI0
#14: Protein Deleted in lung and esophageal cancer 1


Mass: 194002.750 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: E9Q8C0
#17: Protein ...
Tubulin beta-4B chain / Tubulin beta-2C chain


Mass: 49877.824 Da / Num. of mol.: 130 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: P68372
#18: Protein ...
Tubulin alpha-3 chain / Alpha-tubulin 3/7 / Alpha-tubulin isotype M-alpha-3/7 / Tubulin alpha-3/alpha-7 chain


Mass: 50012.359 Da / Num. of mol.: 130 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
References: UniProt: P05214, Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement
#20: Protein
Calmodulin-1


Mass: 16852.545 Da / Num. of mol.: 7 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: P0DP26
#22: Protein ...
Sperm acrosome-associated protein 9 / Acrosome and sperm tail protein / MAST


Mass: 19512.373 Da / Num. of mol.: 58 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q7TPM5
#23: Protein
Protein dpy-30 homolog / Dpy-30-like protein / Dpy-30L


Mass: 11224.607 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q99LT0
#24: Protein Unknown1


Mass: 4868.993 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
#27: Protein MORN repeat containing 2


Mass: 16815.422 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: A0A2I3BRK9
#28: Protein Unknown2


Mass: 8698.714 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
#29: Protein Unknown3


Mass: 12188.016 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
#30: Protein Unknown4


Mass: 4613.678 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
#33: Protein Cilia and flagella-associated protein 47


Mass: 360784.406 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: A0A0G2JEB6
#34: Protein
Hydrocephalus-inducing protein / Protein Hy-3


Mass: 582208.875 Da / Num. of mol.: 5 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q80W93
#35: Protein
Germ cell-less protein-like 1 / mGcl-1 / DP-interacting protein / DIP


Mass: 59722.980 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q920G9
#36: Protein Sperm flagellar protein 2 / Protein KPL2


Mass: 198248.422 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8C9J3
#38: Protein
Putative aspartate aminotransferase, cytoplasmic 2 / Glutamate oxaloacetate transaminase 1-like protein 1 / Transaminase A-like protein 1


Mass: 45505.746 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q7TSV6, aspartate transaminase
#40: Protein G protein-coupled receptor kinase 3 / Beta-adrenergic receptor kinase 2 / Beta-ARK-2


Mass: 79774.852 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
References: UniProt: Q3UYH7, beta-adrenergic-receptor kinase
#41: Protein Serine/threonine-protein phosphatase PP1-gamma catalytic subunit / PP-1G / Protein phosphatase 1C catalytic subunit


Mass: 37030.777 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
References: UniProt: P63087, protein-serine/threonine phosphatase
#42: Protein Microtubule-associated protein 1S / MAP-1S / BPY2-interacting protein 1 / Microtubule-associated protein 8


Mass: 103058.219 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8C052
#44: Protein Ankyrin repeat and MYND domain-containing protein 1


Mass: 102124.492 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8C0W1
#45: Protein Leucine-rich repeat-containing protein 43


Mass: 75038.453 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q3V0L5

-
Cilia- and flagella-associated protein ... , 8 types, 26 molecules hijknopmltuCDEHILA2A3A43K3L3M3N3O3P

#3: Protein Cilia- and flagella-associated protein 65 / Coiled-coil domain-containing protein 108


Mass: 209372.391 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q3V0B4
#4: Protein
Cilia- and flagella-associated protein 70 / Tetratricopeptide repeat protein 18 / TPR repeat protein 18


Mass: 128422.953 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: D3YVL2
#6: Protein Cilia- and flagella-associated protein 20 / Gene trap locus 3 protein


Mass: 22781.389 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8BTU1
#9: Protein Cilia- and flagella-associated protein 74


Mass: 179171.109 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q3UY96
#11: Protein Cilia- and flagella-associated protein 54


Mass: 354209.125 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8C6S9
#12: Protein Cilia- and flagella-associated protein 221 / Primary ciliary dyskinesia protein 1


Mass: 97096.742 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: A9Q751
#21: Protein Cilia- and flagella-associated protein 69


Mass: 106368.562 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8BH53
#26: Protein
Cilia- and flagella-associated protein 119 / Coiled-coil domain-containing protein 189


Mass: 37912.082 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q6NZQ0

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Cilia and flagella associated protein ... , 2 types, 5 molecules ABJK5A

#8: Protein Cilia and flagella associated protein 46


Mass: 302995.875 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: E9Q2C0
#43: Protein Cilia and flagella associated protein 99


Mass: 76053.766 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: A0A140LIX9

-
Sperm-associated antigen ... , 3 types, 36 molecules QRSTUVxyzAAABACADAEAFAGAHAIAJAKALAMANAOAPAQARASATAU...

#15: Protein
Sperm-associated antigen 16 protein / Pf20 protein homolog


Mass: 71570.812 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8K450
#16: Protein Sperm-associated antigen 17 / Projection protein PF6 homolog


Mass: 263465.531 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q5S003
#19: Protein ...
Sperm-associated antigen 6 / Axoneme central apparatus protein / Protein PF16 homolog


Mass: 55329.016 Da / Num. of mol.: 27 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q9JLI7

-
Protein/peptide , 2 types, 2 molecules 3f3g

#31: Protein/peptide Unknown5


Mass: 1549.902 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)
#32: Protein/peptide Unknown6


Mass: 4017.944 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse)

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Leucine-rich repeat and ... , 2 types, 5 molecules 4P4Q4O4X4Y

#37: Protein Leucine-rich repeat and guanylate kinase domain-containing protein


Mass: 93304.680 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q9D5S7
#39: Protein Leucine-rich repeat and death domain-containing protein 1


Mass: 97243.797 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / References: UniProt: Q8C0R9

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Details

Has protein modificationY

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Experimental details

-
Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: CELL / 3D reconstruction method: subtomogram averaging

-
Sample preparation

ComponentName: mouse sperm / Type: CELL / Entity ID: all / Source: NATURAL
Source (natural)Organism: Mus musculus (house mouse)
Buffer solutionpH: 7
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

-
Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: SPOT SCAN
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 5000 nm / Nominal defocus min: 1000 nm / Cs: 2.7 mm
Image recordingElectron dose: 3 e/Å2 / Avg electron dose per subtomogram: 117 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 QUANTUM (4k x 4k)

-
Processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 7.7 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 19000 / Symmetry type: POINT
EM volume selectionNum. of tomograms: 1889 / Num. of volumes extracted: 105000

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