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Aliases for ZRANB3 Gene

Aliases for ZRANB3 Gene

  • Zinc Finger RANBP2-Type Containing 3 2 3 5
  • Zinc Finger Ran-Binding Domain-Containing Protein 3 3 4
  • Zinc Finger, RAN-Binding Domain Containing 3 2 3
  • Annealing Helicase 2 3 4
  • AH2 3 4
  • DNA Annealing Helicase And Endonuclease ZRANB3 3
  • 4933425L19Rik 3
  • EC 3.6.1 61

External Ids for ZRANB3 Gene

Previous GeneCards Identifiers for ZRANB3 Gene

  • GC02M135728
  • GC02M135894
  • GC02M127950

Summaries for ZRANB3 Gene

GeneCards Summary for ZRANB3 Gene

ZRANB3 (Zinc Finger RANBP2-Type Containing 3) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and endonuclease activity. An important paralog of this gene is SMARCAL1.

UniProtKB/Swiss-Prot for ZRANB3 Gene

  • DNA annealing helicase and endonuclease required to maintain genome stability at stalled or collapsed replication forks by facilitating fork restart and limiting inappropriate recombination that could occur during template switching events. Recruited to the sites of stalled DNA replication by polyubiquitinated PCNA and acts as a structure-specific endonuclease that cleaves the replication fork D-loop intermediate, generating an accessible 3-OH group in the template of the leading strand, which is amenable to extension by DNA polymerase. In addition to endonuclease activity, also catalyzes the fork regression via annealing helicase activity in order to prevent disintegration of the replication fork and the formation of double-strand breaks.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZRANB3 Gene

Genomics for ZRANB3 Gene

Regulatory Elements for ZRANB3 Gene

Enhancers for ZRANB3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH02G135556 0.5 FANTOM5 17.4 -25.4 -25396 0.4 PCBP1 PRDM1 ZRANB3 R3HDM1 RAB3GAP1 MAP3K19 GC02M135657
GH02G135632 0.7 FANTOM5 10.3 -101.2 -101225 0.4 PKNOX1 ARID3A FOXK2 RELB MTA2 HCFC1 BHLHE40 NR2F1 TRIM22 DPF2 RNU6-512P ZRANB3 R3HDM1 GC02M135657
GH02G136381 1.5 FANTOM5 Ensembl ENCODE 3.9 -851.1 -851102 2.0 HDGF PKNOX1 WRNIP1 YBX1 EGR1 ZNF143 ETV6 RELB IKZF2 CREM CXCR4 ZRANB3 RN7SKP141 UBBP1
GH02G135226 1.1 ENCODE 5 +304.1 304103 1.4 HNRNPUL1 HDGF PKNOX1 FOXA2 CREB3L1 ARNT AGO1 ZFP64 ARID4B SIN3A MAP3K19 CCNT2 MCM6 ENSG00000208308 ZRANB3 PIR56648 GC02M135288
GH02G135051 1.1 ENCODE 4.5 +477.7 477727 3.9 HDGF PKNOX1 FOXA2 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 MAP3K19 DARS ZRANB3 RAB3GAP1 GC02P135137
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZRANB3 on UCSC Golden Path with GeneCards custom track

Promoters for ZRANB3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000123511 22 3001 HDGF PKNOX1 CREB3L1 ARID4B SIN3A FEZF1 DMAP1 YY1 ZNF766 ZNF143

Genomic Location for ZRANB3 Gene

Chromosome:
2
Start:
135,136,916 bp from pter
End:
135,531,322 bp from pter
Size:
394,407 bases
Orientation:
Minus strand

Genomic View for ZRANB3 Gene

Genes around ZRANB3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZRANB3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZRANB3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZRANB3 Gene

Proteins for ZRANB3 Gene

  • Protein details for ZRANB3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5FWF4-ZRAB3_HUMAN
    Recommended name:
    DNA annealing helicase and endonuclease ZRANB3
    Protein Accession:
    Q5FWF4
    Secondary Accessions:
    • B3KYA1
    • B4E375
    • B5MDI3
    • D3DP76
    • E9PBP0
    • Q53SM1
    • Q6P2C4
    • Q8N1P4
    • Q9H0E8

    Protein attributes for ZRANB3 Gene

    Size:
    1079 amino acids
    Molecular mass:
    123248 Da
    Quaternary structure:
    • Interacts (via PIP-box and RanBP2-type zinc finger) with PCNA (when PCNA is polyubiquitinated via Lys-63-linked polyubiquitin).
    Miscellaneous:
    • In contrast to classical helicases that unwing DNA, annealing helicases rewind it.
    SequenceCaution:
    • Sequence=AAX93066.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=BAG54763.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAG65387.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=EAX11631.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=EAX11633.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for ZRANB3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ZRANB3 Gene

Selected DME Specific Peptides for ZRANB3 Gene

Q5FWF4:
  • DEMGLGKT
  • KFLVFAHH
  • MGLGKTIQ
  • RAHRIGQ

Post-translational modifications for ZRANB3 Gene

  • Ubiquitination at isoforms=3, 5179 and isoforms=3, 5322
  • Modification sites at PhosphoSitePlus

Domains & Families for ZRANB3 Gene

Gene Families for ZRANB3 Gene

Graphical View of Domain Structure for InterPro Entry

Q5FWF4

UniProtKB/Swiss-Prot:

ZRAB3_HUMAN :
  • The PIP-box mediates the interaction with PCNA, while the RanBP2-type zinc finger mediates binding to Lys-63-linked polyubiquitin (PubMed:22704558, PubMed:22705370 and PubMed:22759634).
  • Belongs to the SNF2/RAD54 helicase family.
Domain:
  • The PIP-box mediates the interaction with PCNA, while the RanBP2-type zinc finger mediates binding to Lys-63-linked polyubiquitin (PubMed:22704558, PubMed:22705370 and PubMed:22759634).
Family:
  • Belongs to the SNF2/RAD54 helicase family.
genes like me logo Genes that share domains with ZRANB3: view

Function for ZRANB3 Gene

Molecular function for ZRANB3 Gene

UniProtKB/Swiss-Prot Function:
DNA annealing helicase and endonuclease required to maintain genome stability at stalled or collapsed replication forks by facilitating fork restart and limiting inappropriate recombination that could occur during template switching events. Recruited to the sites of stalled DNA replication by polyubiquitinated PCNA and acts as a structure-specific endonuclease that cleaves the replication fork D-loop intermediate, generating an accessible 3-OH group in the template of the leading strand, which is amenable to extension by DNA polymerase. In addition to endonuclease activity, also catalyzes the fork regression via annealing helicase activity in order to prevent disintegration of the replication fork and the formation of double-strand breaks.

Enzyme Numbers (IUBMB) for ZRANB3 Gene

Gene Ontology (GO) - Molecular Function for ZRANB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003678 NOT DNA helicase activity IDA 21078962
GO:0003824 catalytic activity IEA --
GO:0004386 helicase activity IEA --
GO:0004518 nuclease activity IEA --
genes like me logo Genes that share ontologies with ZRANB3: view

Phenotypes for ZRANB3 Gene

genes like me logo Genes that share phenotypes with ZRANB3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for ZRANB3

CRISPR Products

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZRANB3 Gene

Localization for ZRANB3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZRANB3 Gene

Nucleus. Chromosome. Note=Following DNA damage, recruited to sites of DNA damage and stalled replication forks by polyubiquitinated PCNA.

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 ZRANB3 gene
Compartment Confidence
nucleus 5
cytosol 3
plasma membrane 2
cytoskeleton 2
golgi apparatus 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for ZRANB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005694 chromosome IEA --
GO:0043596 nuclear replication fork IDA 22704558
genes like me logo Genes that share ontologies with ZRANB3: view

Pathways & Interactions for ZRANB3 Gene

SuperPathways for ZRANB3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZRANB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000733 DNA strand renaturation IEA --
GO:0006281 DNA repair IDA,IEA 22759634
GO:0006974 cellular response to DNA damage stimulus IDA,IEA 22704558
GO:0008152 metabolic process IEA --
GO:0009411 response to UV IDA 22704558
genes like me logo Genes that share ontologies with ZRANB3: view

No data available for Pathways by source and SIGNOR curated interactions for ZRANB3 Gene

Drugs & Compounds for ZRANB3 Gene

No Compound Related Data Available

Transcripts for ZRANB3 Gene

Unigene Clusters for ZRANB3 Gene

Zinc finger, RAN-binding domain containing 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZRANB3 Gene

No ASD Table

Relevant External Links for ZRANB3 Gene

GeneLoc Exon Structure for
ZRANB3
ECgene alternative splicing isoforms for
ZRANB3

Expression for ZRANB3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZRANB3 Gene

Protein differential expression in normal tissues from HIPED for ZRANB3 Gene

This gene is overexpressed in Plasma (42.0), Heart (17.9), and Adipocyte (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZRANB3 Gene



Protein tissue co-expression partners for ZRANB3 Gene

NURSA nuclear receptor signaling pathways regulating expression of ZRANB3 Gene:

ZRANB3

SOURCE GeneReport for Unigene cluster for ZRANB3 Gene:

Hs.658422

Evidence on tissue expression from TISSUES for ZRANB3 Gene

  • Kidney(2.3)
  • Skin(2.2)
  • Lung(2.1)
genes like me logo Genes that share expression patterns with ZRANB3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZRANB3 Gene

Orthologs for ZRANB3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for ZRANB3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZRANB3 34 35
  • 99.44 (n)
cow
(Bos Taurus)
Mammalia ZRANB3 34 35
  • 88.45 (n)
dog
(Canis familiaris)
Mammalia ZRANB3 34 35
  • 88.43 (n)
mouse
(Mus musculus)
Mammalia Zranb3 34 16 35
  • 81.26 (n)
rat
(Rattus norvegicus)
Mammalia Zranb3 34
  • 79.38 (n)
oppossum
(Monodelphis domestica)
Mammalia ZRANB3 35
  • 70 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ZRANB3 35
  • 63 (a)
OneToOne
chicken
(Gallus gallus)
Aves ZRANB3 34 35
  • 69.02 (n)
lizard
(Anolis carolinensis)
Reptilia ZRANB3 35
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia zranb3 34
  • 63.87 (n)
Str.7449 34
zebrafish
(Danio rerio)
Actinopterygii zranb3 35
  • 71 (a)
OneToMany
LOC100331496 34
  • 57.73 (n)
CABZ01044943.1 35
  • 47 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea btf-1 35
  • 7 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes MOT1 35
  • 7 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G07810 34
  • 45.92 (n)
rice
(Oryza sativa)
Liliopsida Os07g0598300 34
  • 47.74 (n)
Species where no ortholog for ZRANB3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for ZRANB3 Gene

ENSEMBL:
Gene Tree for ZRANB3 (if available)
TreeFam:
Gene Tree for ZRANB3 (if available)

Paralogs for ZRANB3 Gene

Paralogs for ZRANB3 Gene

(1) SIMAP similar genes for ZRANB3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with ZRANB3: view

Variants for ZRANB3 Gene

Sequence variations from dbSNP and Humsavar for ZRANB3 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs730882182 Pathogenic 135,168,636(+) ACCCC(-/C)TGCTG intron-variant, nc-transcript-variant, reference, frameshift-variant
rs797045905 Pathogenic 135,164,629(+) AGTGT(G/T)AGTCA nc-transcript-variant, downstream-variant-500B, reference, stop-gained
rs10170125 Likely benign 135,168,916(+) AGCAT(C/G)GGAAA intron-variant, utr-variant-3-prime
rs11558413 Likely benign 135,168,952(-) CGAAA(C/T)GACAC intron-variant, utr-variant-3-prime
rs116237324 Likely benign 135,169,776(+) GAGGA(C/T)GACAT intron-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for ZRANB3 Gene

Variant ID Type Subtype PubMed ID
esv2058333 CNV deletion 18987734
esv2410901 CNV deletion 18987734
esv2421388 CNV deletion 20811451
esv2467285 CNV deletion 19546169
esv2661092 CNV deletion 23128226
esv2664308 CNV deletion 23128226
esv2668909 CNV deletion 23128226
esv2720861 CNV deletion 23290073
esv2720863 CNV deletion 23290073
esv2762862 CNV loss 21179565
esv29203 CNV loss 19812545
esv3304011 CNV mobile element insertion 20981092
esv34026 CNV loss 18971310
esv3431049 CNV insertion 20981092
esv3592568 CNV loss 21293372
esv3592573 CNV loss 21293372
esv3592575 CNV loss 21293372
esv3592578 CNV gain 21293372
esv3893415 CNV loss 25118596
nsv1000750 CNV gain 25217958
nsv1003723 CNV loss 25217958
nsv1116796 CNV deletion 24896259
nsv1123396 CNV deletion 24896259
nsv1127766 CNV deletion 24896259
nsv2940 CNV deletion 18451855
nsv2941 CNV insertion 18451855
nsv441786 CNV gain 18776908
nsv472777 CNV novel sequence insertion 20440878
nsv476642 CNV novel sequence insertion 20440878
nsv498936 CNV loss 21111241
nsv514095 CNV loss 21397061
nsv583172 CNV gain 21841781
nsv834386 CNV gain 17160897

Variation tolerance for ZRANB3 Gene

Residual Variation Intolerance Score: 92.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 12.81; 94.77% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZRANB3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZRANB3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZRANB3 Gene

Disorders for ZRANB3 Gene

Relevant External Links for ZRANB3

Genetic Association Database (GAD)
ZRANB3
Human Genome Epidemiology (HuGE) Navigator
ZRANB3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZRANB3

No disorders were found for ZRANB3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZRANB3 Gene

Publications for ZRANB3 Gene

  1. Towards 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 Res. 2001) 2 3 4 64
  2. Identification of a Substrate Recognition Domain in the Replication Stress Response Protein Zinc Finger Ran-binding Domain-containing Protein 3 (ZRANB3). (PMID: 26884333) Badu-Nkansah A. … Cortez D. (J. Biol. Chem. 2016) 3 4 64
  3. Polyubiquitinated PCNA recruits the ZRANB3 translocase to maintain genomic integrity after replication stress. (PMID: 22704558) Ciccia A. … Elledge S.J. (Mol. Cell 2012) 3 4 64
  4. The HARP-like domain-containing protein AH2/ZRANB3 binds to PCNA and participates in cellular response to replication stress. (PMID: 22705370) Yuan J. … Chen J. (Mol. Cell 2012) 3 4 64
  5. ZRANB3 is a structure-specific ATP-dependent endonuclease involved in replication stress response. (PMID: 22759634) Weston R. … Ahel D. (Genes Dev. 2012) 3 4 64

Products for ZRANB3 Gene

Sources for ZRANB3 Gene

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