Seroatlas · Human Serome Atlas

KHDC4

KH homology domain-containing protein 4

Also known as: BLOM7, KHDC4_HUMAN, KIAA0907, SNORA80EHG

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

Protein identityUniProt · HPA

UniProt accession: Q7Z7F0
Gene: KHDC4
Ensembl: ENSG00000132680
Chromosome: 1
Canonical length: 614 aa
Protein class: Predicted intracellular proteins
Subcellular location: Nucleoplasm

OverviewNCBI Gene

Enables RNA binding activity. Involved in mRNA splice site recognition. Located in cytoplasm; nucleoplasm; and spliceosomal complex. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

614 residues, UniProt reviewed canonical sequence.

>Q7Z7F0|KHDC4
     1  MSAGSATHPG AGGRRSKWDQ PAPAPLLFLP PAAPGGEVTS SGGSPGGTTA APSGALDAAA
    61  AVAAKINAML MAKGKLKPTQ NASEKLQAPG KGLTSNKSKD DLVVAEVEIN DVPLTCRNLL
   121  TRGQTQDEIS RLSGAAVSTR GRFMTTEEKA KVGPGDRPLY LHVQGQTREL VDRAVNRIKE
   181  IITNGVVKAA TGTSPTFNGA TVTVYHQPAP IAQLSPAVSQ KPPFQSGMHY VQDKLFVGLE
   241  HAVPTFNVKE KVEGPGCSYL QHIQIETGAK VFLRGKGSGC IEPASGREAF EPMYIYISHP
   301  KPEGLAAAKK LCENLLQTVH AEYSRFVNQI NTAVPLPGYT QPSAISSVPP QPPYYPSNGY
   361  QSGYPVVPPP QQPVQPPYGV PSIVPPAVSL APGVLPALPT GVPPVPTQYP ITQVQPPAST
   421  GQSPMGGPFI PAAPVKTALP AGPQPQPQPQ PPLPSQPQAQ KRRFTEELPD ERESGLLGYQ
   481  HGPIHMTNLG TGFSSQNEIE GAGSKPASSS GKERERDRQL MPPPAFPVTG IKTESDERNG
   541  SGTLTGSHDY PAKKMKTTEK GFGLVAYAAD SSDEEEEHGG HKNASSFPQG WSLGYQYPSS
   601  QPRAKQQMPF WMAP

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against KHDC4 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): 0.6
Highest tissue expression: 51 nTPM

Expression across tissuesHPA

Tissue

retina: 51 nTPM
ovary: 45 nTPM
cerebellum: 45 nTPM
epididymis: 43 nTPM
pituitary gland: 42 nTPM
kidney: 39 nTPM

Single-cell type

endometrial glandular cells: 177 nCPM
sertoli cells: 146 nCPM
endometrial luminal cells: 137 nCPM
epididymal principal cells: 118 nCPM
myonuclei: 112 nCPM
epididymal basal cells: 110 nCPM

Immune cell

basophil: 4.1 nTPM
eosinophil: 3 nTPM
non-classical monocyte: 3 nTPM
naive CD4 T-cell: 2.9 nTPM
MAIT T-cell: 2.8 nTPM
memory CD8 T-cell: 2.8 nTPM

Brain region

cerebellum: 31 nTPM
white matter: 26 nTPM
cerebral cortex: 20 nTPM
basal ganglia: 20 nTPM
medulla oblongata: 19 nTPM
choroid plexus: 19 nTPM

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): 0.32
gnomAD pLI: 0.97
DepMap mean gene effect: -0.18
DepMap dependency class: selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 11% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

mRNA splice site recognition

Molecular functions

RNA binding

Cellular components

Protein domainsUniProt · Pfam · InterPro

K Homology domain, type 1 superfamily
KHDC4/BBP-like, KH-domain type I
ATP-dependent RNA helicase PRP5/DDX46/KHDC4, KH domain
KHDC4/BBP-like, KH-domain type I
KH-domain
KH domain containing protein RIK/BLOM7
KHDC4, second type I KH domain
KHDC4, first type I KH domain

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of KHDC4 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

PRPF19
U2AF65
U2AF2

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads KHDC4 as an antibody target. Whether an autoantibody or antibody against KHDC4 could matter depends on whether native KHDC4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

KHDC4 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 KHDC4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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