Aliases for NT5C3B Gene

Aliases for NT5C3B Gene

  • 5'-Nucleotidase, Cytosolic IIIB 2 3 5
  • 7-Methylguanosine Phosphate-Specific 5'-Nucleotidase 3 4
  • Cytosolic 5'-Nucleotidase III-Like Protein 3 4
  • 5'-Nucleotidase, Cytosolic III-Like 2 3
  • N(7)-Methylguanylate 5'-Phosphatase 3 4
  • 7-Methylguanosine Nucleotidase 3 4
  • Cytosolic 5'-Nucleotidase 3B 3 4
  • CN-III-Like Protein 3 4
  • NT5C3L 3 4
  • EC 3.1.3.91 4
  • EC 3.1.3.5 4
  • CN-IIIB 3

External Ids for NT5C3B Gene

Previous HGNC Symbols for NT5C3B Gene

  • NT5C3L

Previous GeneCards Identifiers for NT5C3B Gene

  • GC17M039982

Summaries for NT5C3B Gene

GeneCards Summary for NT5C3B Gene

NT5C3B (5'-Nucleotidase, Cytosolic IIIB) is a Protein Coding gene. Among its related pathways are Gene Expression and Deadenylation-dependent mRNA decay. Gene Ontology (GO) annotations related to this gene include nucleotide binding and 5'-nucleotidase activity. An important paralog of this gene is NT5C3A.

UniProtKB/Swiss-Prot Summary for NT5C3B Gene

  • Specifically hydrolyzes 7-methylguanosine monophosphate (m(7)GMP) to 7-methylguanosine and inorganic phosphate (PubMed:23223233, PubMed:24603684). The specific activity for m(7)GMP may protect cells against undesired salvage of m(7)GMP and its incorporation into nucleic acids (PubMed:23223233). Also has weak activity for CMP (PubMed:23223233, PubMed:24603684). UMP and purine nucleotides are poor substrates (PubMed:23223233).

Additional gene information for NT5C3B Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NT5C3B Gene

Genomics for NT5C3B Gene

GeneHancer (GH) Regulatory Elements for NT5C3B Gene

Promoters and enhancers for NT5C3B 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
GH17J041835 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas 593.2 +0.3 271 2.4 NRF1 POLR2G PHF8 ZFX POLR2A ZBTB10 ZBTB26 REST CTBP1 ZBTB7A NT5C3B KLHL10 lnc-NT5C3B-1 lnc-P3H4-1
GH17J041837 Promoter 0.3 EPDnew 500.7 -1.5 -1535 0.1 KLHL10 NT5C3B lnc-NT5C3B-1 lnc-P3H4-1 piR-38579-022
GH17J041864 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 77.9 -28.4 -28430 3 EP300 SIN3A NRF1 POLR2G PHF8 ZFX ZIC2 REST POLR2A CLOCK KLHL11 NT5C3B ENSG00000267758 PLEKHH3 CCR10 STAT5A KAT2A HSD17B1P1 HSD17B1 STAT3
GH17J041929 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 67.7 -94.1 -94069 2.5 ZBTB40 ZNF217 EP300 CTCF SIN3A NRF1 TCF12 POLR2G PHF8 ZNF639 ACLY RF00017-2380 lnc-ACLY-2 TTC25 NT5C3B PLEKHH3 HSD17B1 ENSG00000259623 HSD17B1P1 CNTNAP1
GH17J041965 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 59 -130.6 -130627 3.5 EP300 NRF1 TCF12 POLR2G SP1 PHF8 ZIC2 POLR2A KDM6A ZNF423 CNP piR-49789 NT5C3B KAT2A NKIRAS2 DNAJC7 ZNF385C DHX58 KLHL11 RAB5C
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NT5C3B on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NT5C3B

Genomic Locations for NT5C3B Gene

Genomic Locations for NT5C3B Gene
chr17:41,825,057-41,836,271
(GRCh38/hg38)
Size:
11,215 bases
Orientation:
Minus strand
chr17:39,981,334-39,992,523
(GRCh37/hg19)
Size:
11,190 bases
Orientation:
Minus strand

Genomic View for NT5C3B Gene

Genes around NT5C3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NT5C3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NT5C3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NT5C3B Gene

Proteins for NT5C3B Gene

  • Protein details for NT5C3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q969T7-5NT3B_HUMAN
    Recommended name:
    7-methylguanosine phosphate-specific 5'-nucleotidase
    Protein Accession:
    Q969T7
    Secondary Accessions:
    • A8MWB9
    • C9JKC4
    • Q7L3B7

    Protein attributes for NT5C3B Gene

    Size:
    300 amino acids
    Molecular mass:
    34389 Da
    Quaternary structure:
    • Monomer.

    Alternative splice isoforms for NT5C3B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NT5C3B Gene

Post-translational modifications for NT5C3B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for NT5C3B Gene

Domains & Families for NT5C3B Gene

Gene Families for NT5C3B Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for NT5C3B Gene

Suggested Antigen Peptide Sequences for NT5C3B Gene

GenScript: Design optimal peptide antigens:
  • Cytosolic 5'-nucleotidase III-like protein (5NT3L_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q969T7

UniProtKB/Swiss-Prot:

5NT3B_HUMAN :
  • Belongs to the pyrimidine 5'-nucleotidase family.
Family:
  • Belongs to the pyrimidine 5'-nucleotidase family.
genes like me logo Genes that share domains with NT5C3B: view

Function for NT5C3B Gene

Molecular function for NT5C3B Gene

UniProtKB/Swiss-Prot Function:
Specifically hydrolyzes 7-methylguanosine monophosphate (m(7)GMP) to 7-methylguanosine and inorganic phosphate (PubMed:23223233, PubMed:24603684). The specific activity for m(7)GMP may protect cells against undesired salvage of m(7)GMP and its incorporation into nucleic acids (PubMed:23223233). Also has weak activity for CMP (PubMed:23223233, PubMed:24603684). UMP and purine nucleotides are poor substrates (PubMed:23223233).
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=7-methyl-GMP + H2O = N(7)-methylguanosine + phosphate; Xref=Rhea:RHEA:37107, ChEBI:CHEBI:15377, ChEBI:CHEBI:20794, ChEBI:CHEBI:43474, ChEBI:CHEBI:58285; EC=3.1.3.91; Evidence=. ;.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=CMP + H2O = cytidine + phosphate; Xref=Rhea:RHEA:29367, ChEBI:CHEBI:15377, ChEBI:CHEBI:17562, ChEBI:CHEBI:43474, ChEBI:CHEBI:60377; EC=3.1.3.91; Evidence=. ;.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=a ribonucleoside 5'-phosphate + H2O = a ribonucleoside + phosphate; Xref=Rhea:RHEA:12484, ChEBI:CHEBI:15377, ChEBI:CHEBI:18254, ChEBI:CHEBI:43474, ChEBI:CHEBI:58043; EC=3.1.3.5; Evidence=. ;.
UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=7.8 uM for m(7)GMP (at 37 degrees Celsius) {ECO:0000269 PubMed:23223233}; KM=8 uM for m(7)GMP (at 37 degrees Celsius) {ECO:0000269 PubMed:24603684}; KM=79 uM for CMP (at 37 degrees Celsius) {ECO:0000269 PubMed:23223233, ECO:0000269 PubMed:24603684}; KM=355 uM for GMP (at 37 degrees Celsius) {ECO:0000269 PubMed:23223233}; KM=456 uM for AMP (at 37 degrees Celsius) {ECO:0000269 PubMed:23223233}; KM=439 uM for UMP (at 37 degrees Celsius) {ECO:0000269 PubMed:23223233}; Vmax=0.41 umol/min/mg enzyme with m(7)GMP as substrate {ECO:0000269 PubMed:23223233}; Vmax=12 umol/min/mg enzyme with CMP as substrate {ECO:0000269 PubMed:23223233}; Vmax=0.13 umol/min/mg enzyme with GMP as substrate {ECO:0000269 PubMed:23223233}; Vmax=0.07 umol/min/mg enzyme with AMP as substrate {ECO:0000269 PubMed:23223233}; Vmax=10.7 umol/min/mg enzyme with UMP as substrate {ECO:0000269 PubMed:23223233}; Note=kcat is 0.24 sec(-1) with m(7)GMP. kcat is 7 sec(-1) with CMP. kcat is 0.07 sec(-1) with GMP. kcat is 0.04 sec(-1) with AMP. kcat is 6.2 sec(-1) with UMP.;

Enzyme Numbers (IUBMB) for NT5C3B Gene

Phenotypes From GWAS Catalog for NT5C3B Gene

Gene Ontology (GO) - Molecular Function for NT5C3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0000287 magnesium ion binding IEA --
GO:0005515 protein binding IPI 20706999
GO:0008253 5'-nucleotidase activity TAS,IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with NT5C3B: view
genes like me logo Genes that share phenotypes with NT5C3B: view

Animal Model Products

CRISPR Products

miRNA for NT5C3B Gene

miRTarBase miRNAs that target NT5C3B

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NT5C3B

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NT5C3B Gene

Localization for NT5C3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for NT5C3B Gene

Cytoplasm.

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 NT5C3B gene
Compartment Confidence
cytosol 5
nucleus 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for NT5C3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA,IEA 21873635
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with NT5C3B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for NT5C3B Gene

Pathways & Interactions for NT5C3B Gene

genes like me logo Genes that share pathways with NT5C3B: view

Interacting Proteins for NT5C3B Gene

;

Gene Ontology (GO) - Biological Process for NT5C3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009117 nucleotide metabolic process IEA --
GO:0016311 dephosphorylation IEA --
GO:0043928 exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay TAS --
genes like me logo Genes that share ontologies with NT5C3B: view

No data available for SIGNOR curated interactions for NT5C3B Gene

Drugs & Compounds for NT5C3B Gene

(3) Drugs for NT5C3B Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
Ergocalciferol Approved Nutra 1534
genes like me logo Genes that share compounds with NT5C3B: view

Transcripts for NT5C3B Gene

mRNA/cDNA for NT5C3B Gene

1 REFSEQ mRNAs :
16 NCBI additional mRNA sequence :
16 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NT5C3B

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NT5C3B Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b
SP1: - - - - - -
SP2: - - - - - -
SP3: - - -
SP4: - - - - - - - -
SP5: - - - - - -
SP6: -
SP7: - - - -
SP8: - - - - - - -
SP9: - - - - - - - -
SP10: - - - - -
SP11: - -
SP12: - -
SP13:

Relevant External Links for NT5C3B Gene

GeneLoc Exon Structure for
NT5C3B

Expression for NT5C3B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NT5C3B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for NT5C3B Gene

This gene is overexpressed in Skin (16.7), Uterus (8.2), and Salivary gland (7.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NT5C3B Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NT5C3B

SOURCE GeneReport for Unigene cluster for NT5C3B Gene:

Hs.237536

Evidence on tissue expression from TISSUES for NT5C3B Gene

  • Liver(4.2)
  • Lung(4.2)
genes like me logo Genes that share expression patterns with NT5C3B: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NT5C3B Gene

Orthologs for NT5C3B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NT5C3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NT5C3L 30
  • 99.67 (n)
NT5C3B 31
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia NT5C3B 31 30
  • 91.53 (n)
OneToOne
cow
(Bos Taurus)
Mammalia NT5C3L 31 30
  • 90.08 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Nt5c3b 30
  • 87.85 (n)
mouse
(Mus musculus)
Mammalia Nt5c3b 17 31 30
  • 87.29 (n)
oppossum
(Monodelphis domestica)
Mammalia NT5C3B 31
  • 62 (a)
OneToOne
chicken
(Gallus gallus)
Aves NT5C3L 30
  • 69.11 (n)
NT5C3B 31
  • 65 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NT5C3B 31
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nt5c3b 30
  • 68.41 (n)
Str.14210 30
African clawed frog
(Xenopus laevis)
Amphibia LOC398553 30
fruit fly
(Drosophila melanogaster)
Insecta CG3362 31 30
  • 52.36 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010681 30
  • 51.5 (n)
worm
(Caenorhabditis elegans)
Secernentea Y10G11A.1 31
  • 36 (a)
ManyToMany
F25B5.3 31
  • 28 (a)
ManyToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G38680 30
  • 48.5 (n)
rice
(Oryza sativa)
Liliopsida Os03g0648900 30
  • 49.49 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3144 31
  • 45 (a)
OneToMany
Species where no ortholog for NT5C3B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for NT5C3B Gene

ENSEMBL:
Gene Tree for NT5C3B (if available)
TreeFam:
Gene Tree for NT5C3B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NT5C3B: view image

Paralogs for NT5C3B Gene

Paralogs for NT5C3B Gene

(1) SIMAP similar genes for NT5C3B Gene using alignment to 6 proteins:

  • 5NT3B_HUMAN
  • C9IZA4_HUMAN
  • C9J758_HUMAN
  • E5RH64_HUMAN
  • E5RJR6_HUMAN
  • U3KQB1_HUMAN
genes like me logo Genes that share paralogs with NT5C3B: view

Variants for NT5C3B Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NT5C3B Gene

SNP ID Clinical significance and condition Chr 17 pos Variation AA Info Type
rs1046403 - p.Ala209Val
rs1046404 - p.Ser213Cys

Additional dbSNP identifiers (rs#s) for NT5C3B Gene

Structural Variations from Database of Genomic Variants (DGV) for NT5C3B Gene

Variant ID Type Subtype PubMed ID
dgv3174n100 CNV gain 25217958
nsv1057008 CNV gain 25217958
nsv1146669 OTHER inversion 26484159
nsv827994 CNV gain 20364138
nsv833447 CNV loss 17160897

Variation tolerance for NT5C3B Gene

Residual Variation Intolerance Score: 38.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.11; 22.56% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NT5C3B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NT5C3B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NT5C3B Gene

Disorders for NT5C3B Gene

Additional Disease Information for NT5C3B

No disorders were found for NT5C3B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NT5C3B Gene

Publications for NT5C3B Gene

  1. Crystal structures of the novel cytosolic 5'-nucleotidase IIIB explain its preference for m7GMP. (PMID: 24603684) Monecke T … Ficner R (PloS one 2014) 2 3 4 54
  2. Identification of Drosophila and human 7-methyl GMP-specific nucleotidases. (PMID: 23223233) Buschmann J … Wahle E (The Journal of biological chemistry 2013) 2 3 4 54
  3. Novel genes for airway wall thickness identified with combined genome-wide association and expression analyses. (PMID: 25517131) Dijkstra AE … Groen HJ (American journal of respiratory and critical care medicine 2015) 3 54
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A … Hentze MW (Cell 2012) 3 54
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3 54

Products for NT5C3B Gene

Sources for NT5C3B Gene