Seroatlas · Human Serome Atlas

CDC40

Pre-mRNA-processing factor 17

Also known as: EHB3, FLJ10564, PRP17, PRP17_HUMAN, PRPF17

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
O60508
Gene
CDC40
Ensembl
ENSG00000168438
Chromosome
6
Canonical length
579 aa
Protein class
Disease related genes, Human disease related genes, Predicted intracellular proteins
Subcellular location
Nucleoplasm

OverviewNCBI Gene

Pre-mRNA splicing occurs in two sequential transesterification steps. The protein encoded by this gene is found to be essential for the catalytic step II in pre-mRNA splicing process. It is found in the spliceosome, and contains seven WD repeats, which function in protein-protein interactions. This protein has a sequence similarity to yeast Prp17 protein, which functions in two different cellular processes: pre-mRNA splicing and cell cycle progression. It suggests that this protein may play a role in cell cycle progression. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

579 residues, UniProt reviewed canonical sequence.

>O60508|CDC40
     1  MSAAIAALAA SYGSGSGSES DSDSESSRCP LPAADSLMHL TKSPSSKPSL AVAVDSAPEV
    61  AVKEDLETGV HLDPAVKEVQ YNPTYETMFA PEFGPENPFR TQQMAAPRNM LSGYAEPAHI
   121  NDFMFEQQRR TFATYGYALD PSLDNHQVSA KYIGSVEEAE KNQGLTVFET GQKKTEKRKK
   181  FKENDASNID GFLGPWAKYV DEKDVAKPSE EEQKELDEIT AKRQKKGKQE EEKPGEEKTI
   241  LHVKEMYDYQ GRSYLHIPQD VGVNLRSTMP PEKCYLPKKQ IHVWSGHTKG VSAVRLFPLS
   301  GHLLLSCSMD CKIKLWEVYG ERRCLRTFIG HSKAVRDICF NTAGTQFLSA AYDRYLKLWD
   361  TETGQCISRF TNRKVPYCVK FNPDEDKQNL FVAGMSDKKI VQWDIRSGEI VQEYDRHLGA
   421  VNTIVFVDEN RRFVSTSDDK SLRVWEWDIP VDFKYIAEPS MHSMPAVTLS PNGKWLACQS
   481  MDNQILIFGA QNRFRLNKKK IFKGHMVAGY ACQVDFSPDM SYVISGDGNG KLNIWDWKTT
   541  KLYSRFKAHD KVCIGAVWHP HETSKVITCG WDGLIKLWD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CDC40 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.35
Highest tissue expression
36 nTPM

Expression across tissuesHPA

Tissue

  • bone marrow: 36 nTPM
  • lymph node: 18 nTPM
  • tonsil: 17 nTPM
  • thymus: 17 nTPM
  • liver: 16 nTPM
  • kidney: 15 nTPM

Single-cell type

  • early spermatids: 368 nCPM
  • cardiomyocytes: 316 nCPM
  • epicardial cells: 175 nCPM
  • late primary spermatocytes: 135 nCPM
  • late spermatids: 131 nCPM
  • b-cells: 101 nCPM

Immune cell

  • memory B-cell: 30 nTPM
  • basophil: 29 nTPM
  • naive B-cell: 28 nTPM
  • plasmacytoid DC: 25 nTPM
  • non-classical monocyte: 24 nTPM
  • neutrophil: 21 nTPM

Brain region

  • basal ganglia: 24 nTPM
  • hippocampal formation: 23 nTPM
  • cerebral cortex: 22 nTPM
  • white matter: 21 nTPM
  • choroid plexus: 17 nTPM
  • amygdala: 16 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CDC40.

Disease | AllUniProt

Conditions CDC40 is implicated in, by any mechanism.

Disease | GeneticClinVar

1 pathogenic / likely-pathogenic of 60 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.31
gnomAD pLI
0.98
gnomAD missense Z
2.67
DepMap mean gene effect
-0.94
DepMap dependency class
common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of CDC40 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CDC40 as an antibody target. Whether an autoantibody or antibody against CDC40 could matter depends on whether native CDC40 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CDC40 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label CDC40 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/CDC40. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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