Seroatlas · Human Serome Atlas

PRDM13

PR domain zinc finger protein 13

Also known as: PFM10, PRD13_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q9H4Q3
Gene: PRDM13
Ensembl: ENSG00000112238
Chromosome: 6
Canonical length: 707 aa
Protein class: Cancer-related genes, Disease related genes, Human disease related genes, Predicted intracellular proteins, Transcription factors
Subcellular location: Nucleoplasm,Nuclear speckles,Cytosol

OverviewNCBI Gene

Predicted to enable histone methyltransferase activity. Predicted to be involved in regulation of gene expression. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II and neurogenesis. Predicted to be active in nucleus. Implicated in pontocerebellar hypoplasia. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

707 residues, UniProt reviewed canonical sequence.

>Q9H4Q3|PRDM13
     1  MHGAARAPAT SVSADCCIPA GLRLGPVPGT FKLGKYLSDR REPGPKKKVR MVRGELVDES
    61  GGSPLEWIGL IRAARNSQEQ TLEAIADLPG GQIFYRALRD VQPGEELTVW YSNSLAQWFD
   121  IPTTATPTHD EKGEERYICW YCWRTFRYPN SLKAHLRFHC VFSGGGGGAF LHHEHAARQG
   181  AVPAADGLGL SPKPPAPDFA APSQAGTLRP HPLGPPPVQA CGAREGIKRE ASSAPSATSP
   241  TPGKWGQPKK GKEQLDRALD MSGAARGQGH FLGIVGGSSA GVGSLAFYPG VRSAFKPAGL
   301  ARAAAAAHGD PYREESSSKQ GAGLALGRLL GGGRACGRPG SGENSAAGGA GHHHHHHAHH
   361  HHHPKCLLAG DPPPPPPPGL PCSGALRGFP LLSVPPEEAS AFKHVERAPP AAAALPGARY
   421  AQLPPAPGLP LERCALPPLD PGGLKAYPGG ECSHLPAVMP AFTVYNGELL YGSPATTAYY
   481  PLKLHFGGLL KYPESISYFS GPAAAALSPA ELGSLASIDR EIAMHNQQLS EMAAGKGRGR
   541  LDSGTLPPAV AAAGGTGGGG SGGSGAGKPK TGHLCLYCGK LYSRKYGLKI HMRTHTGYKP
   601  LKCKVCLRPF GDPSNLNKHI RLHAEGNTPY RCEFCGKVLV RRRDLERHVK SRHPGQSLLA
   661  KAGDGPGAEP GYPPEPGDPK SDDSDVDVCF TDDQSDPEVG GGGERDL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PRDM13 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): 0.59
Highest tissue expression: 0.5 nTPM

Expression across tissuesHPA

Tissue

retina: 0.5 nTPM
hypothalamus: 0.3 nTPM
testis: 0.1 nTPM
adipose tissue: 0 nTPM
adrenal gland: 0 nTPM
amygdala: 0 nTPM

Single-cell type

oocytes: 9.2 nCPM
retinal amacrine cells: 2.8 nCPM
undifferentiated spermatogonia: 2.3 nCPM
differentiating spermatogonia: 1.2 nCPM
other brain neurons: 0.8 nCPM
late spermatids: 0.4 nCPM

Immune cell

MAIT T-cell: 0.1 nTPM
basophil: 0 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM
intermediate monocyte: 0 nTPM

Brain region

medulla oblongata: 2.1 nTPM
white matter: 1.6 nTPM
spinal cord: 1.4 nTPM
hypothalamus: 1.2 nTPM
basal ganglia: 0.1 nTPM
amygdala: 0 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about PRDM13.

Disease | AllUniProt

Conditions PRDM13 is implicated in, by any mechanism.

Cerebellar dysfunction, impaired intellectual development, and hypogonadotropic hypogonadism (CDIDHH) MIM:619761
Pontocerebellar hypoplasia 17 (PCH17) MIM:619909

Disease | GeneticClinVar

6 pathogenic / likely-pathogenic of 618 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Pontocerebellar hypoplasia, IIA 17
Cerebellar dysfunction, impaired intellectual development, and hypogonadotropic hypogonadism

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): 0.46
gnomAD pLI: 0.56
gnomAD missense Z: 0.42
DepMap mean gene effect: 0.07
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 3% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

nucleus

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PRDM13 as an antibody target. Whether an autoantibody or antibody against PRDM13 could matter depends on whether native PRDM13 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PRDM13 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 PRDM13 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Loading the interactive Seroatlas protein explorer...