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Aliases for PRDM1 Gene

Aliases for PRDM1 Gene

  • PR Domain Containing 1, With ZNF Domain 2 3
  • BLIMP1 3 4 6
  • PRDI-BF1 3 4
  • BLIMP-1 3 4
  • Beta-Interferon Gene Positive-Regulatory Domain I Binding Factor 3
  • Beta-Interferon Gene Positive Regulatory Domain I-Binding Factor 4
  • Positive Regulatory Domain I-Binding Factor 1 4
  • B-Lymphocyte-Induced Maturation Protein 1 3
  • PR Domain Zinc Finger Protein 1 3
  • PR Domain-Containing Protein 1 4
  • PRDI-Binding Factor-1 3
  • PRDI-Binding Factor 1 4
  • EC 2.1.1.- 4

External Ids for PRDM1 Gene

Previous Symbols for PRDM1 Gene

  • BLIMP1

Summaries for PRDM1 Gene

Entrez Gene Summary for PRDM1 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]

GeneCards Summary for PRDM1 Gene

PRDM1 (PR Domain Containing 1, With ZNF Domain) is a Protein Coding gene. Diseases associated with PRDM1 include plasmacytoma and central nervous system lymphoma. Among its related pathways are Direct p53 effectors and Lymphocyte Signaling. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and methyltransferase activity. An important paralog of this gene is ZNF827.

UniProtKB/Swiss-Prot for PRDM1 Gene

  • Transcriptional repressor that binds specifically to the PRDI element in the promoter of the beta-interferon gene (PubMed:1851123). Drives the maturation of B-lymphocytes into Ig secreting cells (PubMed:12626569).

Gene Wiki entry for PRDM1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRDM1 Gene

Genomics for PRDM1 Gene

Genomic Location for PRDM1 Gene

Start:
106,086,320 bp from pter
End:
106,109,939 bp from pter
Size:
23,620 bases
Orientation:
Plus strand

Genomic View for PRDM1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PRDM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRDM1 Gene

Regulatory Elements for PRDM1 Gene

Transcription factor binding sites by QIAGEN in the PRDM1 gene promoter:

Proteins for PRDM1 Gene

  • Protein details for PRDM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75626-PRDM1_HUMAN
    Recommended name:
    PR domain zinc finger protein 1
    Protein Accession:
    O75626
    Secondary Accessions:
    • B2REA6
    • E1P5E0
    • Q86WM7

    Protein attributes for PRDM1 Gene

    Size:
    825 amino acids
    Molecular mass:
    91771 Da
    Quaternary structure:
    • Interacts with PRMT5 (By similarity). Interacts with FBXO10 and FBXO11.
    SequenceCaution:
    • Sequence=AAO45623.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PRDM1 Gene

    Alternative splice isoforms for PRDM1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRDM1 Gene

Proteomics data for PRDM1 Gene at MOPED

Post-translational modifications for PRDM1 Gene

  • Sumoylation at Lys-816 by PIAS1 augments transcriptional repressor activity, and is critical for plasma cell differentiation.
  • Ubiquitinated by the SCF(FBXO11) complex, leading to its degradation by the proteasome.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PRDM1 Gene

No data available for DME Specific Peptides for PRDM1 Gene

Domains for PRDM1 Gene

Gene Families for PRDM1 Gene

HGNC:
  • ZNF :Zinc fingers, C2H2-type

Protein Domains for PRDM1 Gene

UniProtKB/Swiss-Prot:

PRDM1_HUMAN
Domain:
  • Contains 1 SET domain.:
    • O75626
Family:
  • Belongs to the class V-like SAM-binding methyltransferase superfamily.:
    • O75626
Similarity:
  • Contains 4 C2H2-type zinc fingers.:
    • O75626
genes like me logo Genes that share domains with PRDM1: view

Function for PRDM1 Gene

Molecular function for PRDM1 Gene

GENATLAS Biochemistry: PR domain containing 1,B-lymphocyte maturation promoting transcription factor,repressing the expression of IFNB promoter,and the transcription by recruiting a complex of Groucho family proteins to DNA,deleted in several B-cell non Hodgkin lymphoma and other cancers
UniProtKB/Swiss-Prot Function: Transcriptional repressor that binds specifically to the PRDI element in the promoter of the beta-interferon gene (PubMed:1851123). Drives the maturation of B-lymphocytes into Ig secreting cells (PubMed:12626569).

Enzyme Numbers (IUBMB) for PRDM1 Gene

Gene Ontology (GO) - Molecular Function for PRDM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IDA 1851123
GO:0001078 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription IDA 1851123
GO:0003700 sequence-specific DNA binding transcription factor activity TAS 1851123
GO:0005515 protein binding IPI 22555612
GO:0008168 methyltransferase activity IEA --
genes like me logo Genes that share ontologies with PRDM1: view
genes like me logo Genes that share phenotypes with PRDM1: view

Animal Models for PRDM1 Gene

MGI Knock Outs for PRDM1:
Targeting motifs for PRDM1 Gene
HOMER Transcription Factor Regulatory Elements motif PRDM1
  • Consensus sequence: ACTTTCACTTTC Submotif: canonical Cell Type: Hela GeoId: GSE31477

No data available for Transcription Factor Targeting for PRDM1 Gene

Localization for PRDM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRDM1 Gene

Nucleus. Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PRDM1 Gene COMPARTMENTS Subcellular localization image for PRDM1 gene
Compartment Confidence
nucleus 3

Gene Ontology (GO) - Cellular Components for PRDM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IDA 21421998
genes like me logo Genes that share ontologies with PRDM1: view

Pathways for PRDM1 Gene

genes like me logo Genes that share pathways with PRDM1: view

Pathways by source for PRDM1 Gene

1 Cell Signaling Technology pathway for PRDM1 Gene
2 BioSystems pathways for PRDM1 Gene

Gene Ontology (GO) - Biological Process for PRDM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 1851123
GO:0001701 in utero embryonic development --
GO:0001892 embryonic placenta development --
GO:0001893 maternal placenta development IEA --
GO:0006351 transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with PRDM1: view

Compounds for PRDM1 Gene

(3) Novoseek inferred chemical compound relationships for PRDM1 Gene

Compound -log(P) Hits PubMed IDs
2-methoxyestradiol 74.2 5
cytidine 68.3 3
zinc 36.1 9
genes like me logo Genes that share compounds with PRDM1: view

Transcripts for PRDM1 Gene

Unigene Clusters for PRDM1 Gene

PR domain containing 1, with ZNF domain:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PRDM1 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b · 11c
SP1: - - - - - - - -
SP2: - - - - - - -
SP3: -
SP4: - -
SP5: - - - - -
SP6:
SP7: -
SP8: - -
SP9: -
SP10: -

Relevant External Links for PRDM1 Gene

GeneLoc Exon Structure for
PRDM1
ECgene alternative splicing isoforms for
PRDM1

Expression for PRDM1 Gene

mRNA expression in normal human tissues for PRDM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PRDM1 Gene

This gene is overexpressed in Esophagus - Mucosa (7.8) and Whole Blood (4.2).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for PRDM1 Gene

SOURCE GeneReport for Unigene cluster for PRDM1 Gene Hs.436023

genes like me logo Genes that share expressions with PRDM1: view

Orthologs for PRDM1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PRDM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRDM1 36
  • 99.6 (n)
  • 99.15 (a)
PRDM1 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PRDM1 36
  • 86.37 (n)
  • 88.11 (a)
PRDM1 37
  • 88 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PRDM1 36
  • 84.44 (n)
  • 83.91 (a)
PRDM1 37
  • 84 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Prdm1 36
  • 86.94 (n)
  • 89.17 (a)
Prdm1 16
Prdm1 37
  • 89 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PRDM1 37
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PRDM1 37
  • 72 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Prdm1 36
  • 86.92 (n)
  • 88.58 (a)
chicken
(Gallus gallus)
Aves BLIMP-1 37
  • 73 (a)
OneToOne
PRDM1 36
  • 77.38 (n)
  • 79.68 (a)
lizard
(Anolis carolinensis)
Reptilia PRDM1 37
  • 77 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia prdm1-prov 36
tropical clawed frog
(Silurana tropicalis)
Amphibia prdm1 36
  • 70.42 (n)
  • 70.68 (a)
zebrafish
(Danio rerio)
Actinopterygii prdm1a 36
  • 62.2 (n)
  • 62.43 (a)
prdm1a 37
  • 54 (a)
OneToOne
ubo 36
fruit fly
(Drosophila melanogaster)
Insecta Blimp-1 37
  • 19 (a)
OneToOne
CG5249 38
  • 72 (a)
worm
(Caenorhabditis elegans)
Secernentea odd-3 38
  • 60 (a)
Species with no ortholog for PRDM1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PRDM1 Gene

ENSEMBL:
Gene Tree for PRDM1 (if available)
TreeFam:
Gene Tree for PRDM1 (if available)

Paralogs for PRDM1 Gene

Paralogs for PRDM1 Gene

genes like me logo Genes that share paralogs with PRDM1: view

Variants for PRDM1 Gene

Sequence variations from dbSNP and Humsavar for PRDM1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs478295 -- 106,108,493(+) GTCTG(A/G)GTGGT utr-variant-3-prime
rs486522 -- 106,101,523(+) AAATG(A/G)TGGTT intron-variant
rs530239 -- 106,100,256(+) CTCTT(G/T)GAGCA intron-variant
rs535780 -- 106,100,855(+) GGCTC(C/T)CAGTT intron-variant
rs547057 -- 106,103,528(+) GACTG(C/T)CCTCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PRDM1 Gene

Variant ID Type Subtype PubMed ID
nsv830755 CNV Loss 17160897
nsv5429 CNV Insertion 18451855

Relevant External Links for PRDM1 Gene

HapMap Linkage Disequilibrium report
PRDM1
Human Gene Mutation Database (HGMD)
PRDM1

Disorders for PRDM1 Gene

(1) University of Copenhagen DISEASES for PRDM1 Gene

(9) Novoseek inferred disease relationships for PRDM1 Gene

Disease -log(P) Hits PubMed IDs
lymphoma b-cell 55.7 12
plasmacytoma 51.2 2
lymphoma 50.7 11
myeloma 50.3 7
lymphoma large cell diffuse 41.6 1

Relevant External Links for PRDM1

Genetic Association Database (GAD)
PRDM1
Human Genome Epidemiology (HuGE) Navigator
PRDM1
genes like me logo Genes that share disorders with PRDM1: view

No data available for UniProtKB/Swiss-Prot for PRDM1 Gene

Publications for PRDM1 Gene

  1. Identification and characterization of a novel repressor of beta- interferon gene expression. (PMID: 1851123) Keller A.D. … Maniatis T. (Genes Dev. 1991) 2 3 4 23
  2. Identification of a functionally impaired positive regulatory domain I binding factor 1 transcription repressor in myeloma cell lines. (PMID: 12626569) Gyory I. … Wright K.L. (J. Immunol. 2003) 3 4 23
  3. Lack of evidence of a role of XBP1 and PRDM1 polymorphisms in Spanish patients with immunoglobulin A deficiency. (PMID: 19735688) del Pozo N. … NA_A+ez C. (Hum. Immunol. 2009) 3 23 49
  4. Analysis of 39 Crohn's disease risk loci in Swedish inflammatory bowel disease patients. (PMID: 19760754) TAPrkvist L. … Pettersson S. (Inflamm. Bowel Dis. 2010) 3 49
  5. Genome-wide association study in a Chinese Han population identifies nine new susceptibility loci for systemic lupus erythematosus. (PMID: 19838193) Han J.W. … Zhang X.J. (Nat. Genet. 2009) 3 49

Products for PRDM1 Gene

  • Addgene plasmids for PRDM1

Sources for PRDM1 Gene

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