Seroatlas · Human Serome Atlas

PRDM1

PR domain zinc finger protein 1

Also known as: BLIMP1, PRDI-BF1, PRDM1_HUMAN

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

Protein identityUniProt · HPA

UniProt accession
O75626
Gene
PRDM1
Ensembl
ENSG00000057657
Chromosome
6
Canonical length
825 aa
Protein class
Cancer-related genes, Disease related genes, Human disease related genes, Predicted intracellular proteins, Transcription factors
Subcellular location
Nucleoplasm,Nucleoli

OverviewNCBI Gene

This gene encodes a protein that acts as a repressor of beta-interferon gene expression. The protein binds specifically to the PRDI (positive regulatory domain I element) of the beta-IFN gene promoter. Transcription of this gene increases upon virus induction. Two alternatively spliced transcript variants that encode different isoforms have been reported. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

825 residues, UniProt reviewed canonical sequence.

>O75626|PRDM1
     1  MLDICLEKRV GTTLAAPKCN SSTVRFQGLA EGTKGTMKMD MEDADMTLWT EAEFEEKCTY
    61  IVNDHPWDSG ADGGTSVQAE ASLPRNLLFK YATNSEEVIG VMSKEYIPKG TRFGPLIGEI
   121  YTNDTVPKNA NRKYFWRIYS RGELHHFIDG FNEEKSNWMR YVNPAHSPRE QNLAACQNGM
   181  NIYFYTIKPI PANQELLVWY CRDFAERLHY PYPGELTMMN LTQTQSSLKQ PSTEKNELCP
   241  KNVPKREYSV KEILKLDSNP SKGKDLYRSN ISPLTSEKDL DDFRRRGSPE MPFYPRVVYP
   301  IRAPLPEDFL KASLAYGIER PTYITRSPIP SSTTPSPSAR SSPDQSLKSS SPHSSPGNTV
   361  SPVGPGSQEH RDSYAYLNAS YGTEGLGSYP GYAPLPHLPP AFIPSYNAHY PKFLLPPYGM
   421  NCNGLSAVSS MNGINNFGLF PRLCPVYSNL LGGGSLPHPM LNPTSLPSSL PSDGARRLLQ
   481  PEHPREVLVP APHSAFSFTG AAASMKDKAC SPTSGSPTAG TAATAEHVVQ PKATSAAMAA
   541  PSSDEAMNLI KNKRNMTGYK TLPYPLKKQN GKIKYECNVC AKTFGQLSNL KVHLRVHSGE
   601  RPFKCQTCNK GFTQLAHLQK HYLVHTGEKP HECQVCHKRF SSTSNLKTHL RLHSGEKPYQ
   661  CKVCPAKFTQ FVHLKLHKRL HTRERPHKCS QCHKNYIHLC SLKVHLKGNC AAAPAPGLPL
   721  EDLTRINEEI EKFDISDNAD RLEDVEDDIS VISVVEKEIL AVVRKEKEET GLKVSLQRNM
   781  GNGLLSSGCS LYESSDLPLM KLPPSNPLPL VPVKVKQETV EPMDP

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PRDM1 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)
0.54
Highest tissue expression
52 nTPM

Expression across tissuesHPA

Tissue

  • esophagus: 52 nTPM
  • tonsil: 26 nTPM
  • cervix: 20 nTPM
  • vagina: 19 nTPM
  • bone marrow: 19 nTPM
  • appendix: 19 nTPM

Single-cell type

  • esophageal apical cells: 1,165 nCPM
  • plasma cells: 815 nCPM
  • t-cells: 221 nCPM
  • endometrial stromal cells: 210 nCPM
  • nk-cells: 182 nCPM
  • macrophages: 178 nCPM

Immune cell

  • MAIT T-cell: 34 nTPM
  • T-reg: 29 nTPM
  • gdT-cell: 22 nTPM
  • memory CD4 T-cell: 20 nTPM
  • memory CD8 T-cell: 20 nTPM
  • neutrophil: 13 nTPM

Brain region

  • cerebellum: 13 nTPM
  • medulla oblongata: 8.3 nTPM
  • white matter: 8.3 nTPM
  • choroid plexus: 7.9 nTPM
  • thalamus: 7.8 nTPM
  • hypothalamus: 7.3 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)
0.33
gnomAD pLI
0.96
gnomAD missense Z
1.77
DepMap mean gene effect
0.04
DepMap dependency class
selective

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

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PRDM1 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 PRDM1 as an antibody target. Whether an autoantibody or antibody against PRDM1 could matter depends on whether native PRDM1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PRDM1 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 PRDM1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/PRDM1. 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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