HomeAboutRankingsData Sources
© 2026 GeneE
🧬
GeneE
4 sources retrieved · Most recent: April 2026 · Index updated 15 days ago
ⓘGeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
SPACA9
sperm acrosome associated 9
Chromosome 9 · 9q34.13
NCBI Gene: 11092Ensembl: ENSG00000165698.17HGNC: HGNC:1367UniProt: Q96E40
25PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
axoneme assemblyprotein bindingcytoplasmic microtubulecytosolmathematical abilitycolorectal carcinomaidiopathic pulmonary fibrosisneoplasm
✦AI Summary

SPACA9 is a microtubule inner protein (MIP) that localizes to the axoneme of ciliated and flagellated cells. As a polyspecific MIP, SPACA9 binds to both doublet microtubules of multiciliated respiratory cells and distal singlet microtubules of human spermatozoa 1. Within doublet microtubules, SPACA9 forms intralumenal striations in the B tubule, while in sperm singlet microtubules it adopts noncontinuous spiral conformations, suggesting structural flexibility in response to different microtubule architectures 1. The protein functions as part of an extensive cross-linking network within the axonemal microtubule lumen, contributing to the structural integrity and organization of ciliary and flagellar axonemes. SPACA9's presence in both respiratory and reproductive systems indicates its fundamental role in axoneme assembly and function. The identification of SPACA9 as a conserved lumenal protein component provides critical structural references for understanding ciliopathy-causing mutations and enables cryo-EM analysis of patient-derived ciliary samples 1. While direct disease associations have not been characterized in the provided abstracts, SPACA9's essential role in microtubule organization suggests that mutations could compromise ciliary and sperm flagellar function, potentially contributing to ciliopathies and male infertility.

Sources cited
1
SPACA9 is a microtubule inner protein localizing to doublet and singlet microtubules of respiratory and sperm cells, forming intralumenal structures that cross-link the axonemal microtubule lumen
PMID: 36191189
⚠Limited data available — This gene has 1 indexed publication. Summary and analysis may be incomplete.
Disease Associationsⓘ20
mathematical abilityOpen Targets
0.15Weak
colorectal carcinomaOpen Targets
0.07Suggestive
idiopathic pulmonary fibrosisOpen Targets
0.05Suggestive
neoplasmOpen Targets
0.04Suggestive
lymphatic system diseaseOpen Targets
0.03Suggestive
Alzheimer diseaseOpen Targets
0.03Suggestive
kidney diseaseOpen Targets
0.02Suggestive
cervical carcinomaOpen Targets
0.02Suggestive
colorectal cancerOpen Targets
0.01Suggestive
chronic rhinosinusitis with nasal polypsOpen Targets
0.01Suggestive
Abnormal sperm morphologyOpen Targets
0.01Suggestive
breast cancerOpen Targets
0.01Suggestive
bacterial diseaseOpen Targets
0.01Suggestive
rectum cancerOpen Targets
0.01Suggestive
cancerOpen Targets
0.01Suggestive
hyperinsulinemic hypoglycemia, familial, 4Open Targets
0.01Suggestive
atopic eczemaOpen Targets
0.01Suggestive
allergic rhinitisOpen Targets
0.01Suggestive
HelminthiasisOpen Targets
0.01Suggestive
isolated focal cortical dysplasia type IIOpen Targets
0.01Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
EFHC2Protein interaction91%TEKT1Protein interaction91%CFAP45Protein interaction91%TEKT3Protein interaction90%EFHC1Protein interaction90%RIBC2Protein interaction90%
Tissue Expression6 tissues
Ovary
100%
Heart
63%
Brain
61%
Bone Marrow
31%
Lung
31%
Liver
25%
Gene Interaction Network
Click a node to explore
SPACA9EFHC2TEKT1CFAP45TEKT3EFHC1RIBC2
PROTEIN STRUCTURE
Preparing viewer…
PDB7UNG · 3.60 Å · EM
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
1.68LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF1.11 [0.74–1.68]
RankingsWhere SPACA9 stands among ~20K protein-coding genes
  • #13,081of 20,598
    Most Researched25
  • #16,029of 17,882
    Most Constrained (LOEUF)1.68
Genes detectedSPACA9
Sources retrieved4 papers
Response time—
📄 Sources
4
1
SPACA9 is a lumenal protein of human ciliary singlet and doublet microtubules.
PMID: 36191189
Proc Natl Acad Sci U S A · 2022
1.00
2
A novel testis protein, RSB-66, interacting with INCA1 (inhibitor of Cdk interacting with cyclin A1).
PMID: 18756329
Biochem Cell Biol · 2008
0.75
3
SHOC1 and PTD form an XPF-ERCC1-like complex that is required for formation of class I crossovers.
PMID: 21771883
J Cell Sci · 2011
0.50
4
Host cell protein C9orf69 promotes viral proliferation via interaction with HSV-1 UL25 protein.
PMID: 21667337
Virol Sin · 2011
0.25