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HPF1 Gene(Protein Coding)

Histone PARylation Factor 1

GCID:
GC04M169730
GIFtS:
30
Genes Participants
UDN Logo

Aliases for HPF1 Gene

Aliases for HPF1 Gene

  • Histone PARylation Factor 1 2 3 5
  • C4orf27 3 4
  • Chromosome 4 Open Reading Frame 27 2
  • UPF0609 Protein C4orf27 3

External Ids for HPF1 Gene

Previous HGNC Symbols for HPF1 Gene

  • C4orf27

Summaries for HPF1 Gene

GeneCards Summary for HPF1 Gene

HPF1 (Histone PARylation Factor 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for HPF1 Gene

  • Acts as a cofactor for serine ADP-ribosylation by conferring serine specificity on PARP1 and PARP2: interacts with PARP1 and PARP1 and is able to change amino acid specificity toward serine (PubMed:28190768). Promotes histone serine ADP-ribosylation in response to DNA damage, limiting DNA damage-induced PARP1 hyper-automodification, and ensuring genome stability (PubMed:27067600, PubMed:28190768).

Additional gene information for HPF1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HPF1 Gene

Genomics for HPF1 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for HPF1 Gene

Promoters and enhancers for HPF1 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH04I169756 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 565 +0.2 203 2 CLOCK SMAD1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B E2F8 HPF1 GC04P169721
GH04I169266 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.5 +488.1 488054 6.2 PKNOX1 FOXA2 ARID4B SIN3A ZNF2 ZNF48 GLIS2 ZNF143 ATF7 FOS SH3RF1 HPF1 ENSG00000251171
GH04I168814 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 11.1 +941.4 941399 3.6 SIN3A FEZF1 ZNF2 ZBTB7B ELK1 ZNF143 ATF7 FOS ZNF662 MYNN HPF1 PIR54806 GC04P168775 GC04M168514 PALLD
GH04I169774 Enhancer 0.6 Ensembl 0.4 -17.0 -17048 0.8 CTCF MTA2 L3MBTL2 ZBTB11 ZBTB40 SMARCA4 GMEB1 GABPB1 ZBTB33 MGA GC04M169780 HPF1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HPF1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HPF1 Gene

Genomic Locations for HPF1 Gene
chr4:169,729,465-169,757,953
(GRCh38/hg38)
Size:
28,489 bases
Orientation:
Minus strand
chr4:170,650,616-170,679,104
(GRCh37/hg19)

Genomic View for HPF1 Gene

Genes around HPF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HPF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HPF1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for HPF1 Gene

Proteins for HPF1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for HPF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NWY4-HPF1_HUMAN
    Recommended name:
    Histone PARylation factor 1
    Protein Accession:
    Q9NWY4

    Protein attributes for HPF1 Gene

    Size:
    346 amino acids
    Molecular mass:
    39436 Da
    Quaternary structure:
    • Interacts with PARP1 (via the PARP catalytic domain) (PubMed:27067600). Interacts with histone H2A and histone H3 in a PARP1-dependent manner (PubMed:27067600). Weakly interacts with PARP2 (via the PARP catalytic domain) (PubMed:27067600).

neXtProt entry for HPF1 Gene

Post-translational modifications for HPF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HPF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HPF1 Gene

Domains & Families for HPF1 Gene

Gene Families for HPF1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for HPF1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for HPF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NWY4

UniProtKB/Swiss-Prot:

HPF1_HUMAN :
  • Belongs to the HPF1 family.
Family:
  • Belongs to the HPF1 family.
genes like me logo Genes that share domains with HPF1: view

Function for HPF1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for HPF1 Gene

UniProtKB/Swiss-Prot Function:
Acts as a cofactor for serine ADP-ribosylation by conferring serine specificity on PARP1 and PARP2: interacts with PARP1 and PARP1 and is able to change amino acid specificity toward serine (PubMed:28190768). Promotes histone serine ADP-ribosylation in response to DNA damage, limiting DNA damage-induced PARP1 hyper-automodification, and ensuring genome stability (PubMed:27067600, PubMed:28190768).

Gene Ontology (GO) - Molecular Function for HPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 27067600
GO:0042393 histone binding IDA 27067600
genes like me logo Genes that share ontologies with HPF1: view
genes like me logo Genes that share phenotypes with HPF1: view

Animal Model Products

miRNA for HPF1 Gene

miRTarBase miRNAs that target HPF1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HPF1 Gene

Localization for HPF1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HPF1 gene
Compartment Confidence
nucleus 5
cytosol 3
cytoskeleton 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytokinetic bridge (2)
  • Cytosol (2)
  • Microtubules (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for HPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
genes like me logo Genes that share ontologies with HPF1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for HPF1 Gene

Pathways & Interactions for HPF1 Gene

SuperPathways for HPF1 Gene

PathCards logo More details on SuperPathways for HPF1
No Data Available

Gene Ontology (GO) - Biological Process for HPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006974 cellular response to DNA damage stimulus IMP 27067600
GO:0010835 regulation of protein ADP-ribosylation IMP 27067600
GO:0018312 peptidyl-serine ADP-ribosylation IDA 28190768
genes like me logo Genes that share ontologies with HPF1: view

No data available for Pathways by source and SIGNOR curated interactions for HPF1 Gene

Drugs & Compounds for HPF1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for HPF1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for HPF1 Gene

(2) REFSEQ mRNAs :
(121) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HPF1 Gene

No ASD Table

Relevant External Links for HPF1 Gene

GeneLoc Exon Structure for
HPF1
ECgene alternative splicing isoforms for
HPF1

Expression for HPF1 Gene

Products:

  1. Primer
  2. Gene Expression Assay

NURSA nuclear receptor signaling pathways regulating expression of HPF1 Gene:

HPF1

Evidence on tissue expression from TISSUES for HPF1 Gene

  • Nervous system(4.3)
  • Skin(4.2)
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HPF1 Gene

Orthologs for HPF1 Gene

This gene was present in the common ancestor of animals.

Orthologs for HPF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia C4H4orf27 33
  • 99.33 (n)
C4orf27 34
  • 99 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia C4ORF27 34
  • 93 (a)
 OneToOne
C25H4orf27 33
  • 92.73 (n)
mouse
(Mus musculus)
 Mammalia 2700029M09Rik 34 33
  • 90.06 (n)
 OneToOne
Hpf1 16
rat
(Rattus norvegicus)
 Mammalia RGD1311747 33
  • 87.95 (n)
cow
(Bos Taurus)
 Mammalia C8H4orf27 33
  • 86.22 (n)
C4orf27 34
  • 86 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia C4orf27 34
  • 84 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia C4orf27 34
  • 75 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves C4H4ORF27 33
  • 74.57 (n)
C4orf27 34
  • 74 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia C4orf27 34
  • 78 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia LOC100488348 33
  • 69.4 (n)
zebrafish
(Danio rerio)
 Actinopterygii zgc:101819 33
  • 64.95 (n)
C1H4orf27 34
  • 63 (a)
 OneToOne
wufb44b08 33
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP010317 33
  • 47.68 (n)
fruit fly
(Drosophila melanogaster)
 Insecta CG1218 33 34
  • 47.03 (n)
sea squirt
(Ciona savignyi)
 Ascidiacea -- 34
  • 44 (a)
 OneToOne
sea squirt
(Ciona intestinalis)
 Ascidiacea Cin.13723 33
Species where no ortholog for HPF1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 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)
  • worm (Caenorhabditis elegans)

Evolution for HPF1 Gene

ENSEMBL:
Gene Tree for HPF1 (if available)
TreeFam:
Gene Tree for HPF1 (if available)

Paralogs for HPF1 Gene

Pseudogenes.org Pseudogenes for HPF1 Gene

genes like me logo Genes that share paralogs with HPF1: view

No data available for Paralogs for HPF1 Gene

Variants for HPF1 Gene

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  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for HPF1 Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs10001076 -- 169,742,618(-) C/T intron_variant
rs1000254589 -- 169,731,449(-) A/G 3_prime_UTR_variant, intron_variant
rs1000429053 -- 169,737,904(-) T/A intron_variant
rs1000671257 -- 169,736,815(-) C/T intron_variant
rs1000765703 -- 169,736,573(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for HPF1 Gene

Variant ID Type Subtype PubMed ID
esv3351919 CNV insertion 20981092
esv3603125 CNV loss 21293372
nsv964113 CNV duplication 23825009

Variation tolerance for HPF1 Gene

Residual Variation Intolerance Score: 62.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.56; 30.12% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HPF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HPF1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HPF1 Gene

Disorders for HPF1 Gene

Additional Disease Information for HPF1

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for HPF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HPF1 Gene

Publications for HPF1 Gene

  1. HPF1/C4orf27 Is a PARP-1-Interacting Protein that Regulates PARP-1 ADP-Ribosylation Activity. (PMID: 27067600) Gibbs-Seymour I … Ahel I (Molecular cell 2016) 2 3 4 58
  2. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 2 3 4 58
  3. Serine ADP-Ribosylation Depends on HPF1. (PMID: 28190768) Bonfiglio JJ … Matic I (Molecular cell 2017) 3 4 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. SERious Surprises for ADP-Ribosylation Specificity: HPF1 Switches PARP1 Specificity to Ser Residues. (PMID: 28257697) Leung AK (Molecular cell 2017) 3 58

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