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Aliases for PDE3B Gene

Aliases for PDE3B Gene

  • Phosphodiesterase 3B 2 3 5
  • Cyclic GMP-Inhibited Phosphodiesterase B 3 4
  • Phosphodiesterase 3B, CGMP-Inhibited 2 3
  • EC 3.1.4.17 4 58
  • CGI-PDE B 3 4
  • CGIPDE1 3 4
  • CGIP1 3 4
  • CGMP-Inhibited 3,5-Cyclic Phosphodiesterase B 3
  • Cyclic Nucleotide Phosphodiesterase 3
  • EC 3.1.4 58
  • HcGIP1 3

External Ids for PDE3B Gene

Previous GeneCards Identifiers for PDE3B Gene

  • GC11P015846
  • GC11P015413
  • GC11P014704
  • GC11P014629
  • GC11P014328

Summaries for PDE3B Gene

GeneCards Summary for PDE3B Gene

PDE3B (Phosphodiesterase 3B) is a Protein Coding gene. Diseases associated with PDE3B include Pseudohypoparathyroidism, Type Ii and Pelizaeus-Merzbacher Disease. Among its related pathways are G alpha (s) signalling events and Akt Signaling. GO annotations related to this gene include 3,5-cyclic-nucleotide phosphodiesterase activity and cGMP-inhibited cyclic-nucleotide phosphodiesterase activity. An important paralog of this gene is PDE3A.

UniProtKB/Swiss-Prot for PDE3B Gene

  • Cyclic nucleotide phosphodiesterase with a dual-specificity for the second messengers cAMP and cGMP, which are key regulators of many important physiological processes. May play a role in fat metabolism. Regulates cAMP binding of RAPGEF3. Through simultaneous binding to RAPGEF3 and PIK3R6 assembles a signaling complex in which the PI3K gamma complex is activated by RAPGEF3 and which is involved in angiogenesis.

Tocris Summary for PDE3B Gene

  • Phosphodiesterases (PDEs) are a family of phosphohydrolyases that catalyze the hydrolysis of 3' cyclic phosphate bonds in adenosine and/or guanine 3',5' cyclic monophosphate (cAMP and/or cGMP). PDEs regulate the second messengers by controlling their degradation.

Additional gene information for PDE3B Gene

No data available for Entrez Gene Summary , CIViC summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDE3B Gene

Genomics for PDE3B Gene

Regulatory Elements for PDE3B Gene

Enhancers for PDE3B 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
GH11H014577 1.6 FANTOM5 Ensembl ENCODE 14 -64.5 -64477 3.7 FOXA2 ATF1 ARID4B YY1 ZNF766 ATF7 RUNX3 JUNB REST PPARG PDE3B PSMA1 CYP2R1 PIR39085 ENSG00000256206
GH11H014536 1.2 FANTOM5 Ensembl ENCODE 12.1 -105.9 -105856 2 CTCF ZNF654 SOX6 TRIM22 ZNF384 DPF2 RAD21 NR2F2 GATA3 GATA2 PSMA1 PDE3B COPB1 ENSG00000256206 PIR39085
GH11H014764 1.2 Ensembl ENCODE 11.8 +121.4 121405 1.8 ATF1 BRCA1 ZNF766 GATA2 ATF7 RUNX3 JUNB ZNF592 MAFF SMARCA4 PDE3B PSMA1 MORF4L1P3 GC11P014892
GH11H014618 1.2 ENCODE dbSUPER 11.7 -23.8 -23751 2 ELF3 FOXA2 ATF1 DMAP1 RAD21 RARA YY1 CREM MIXL1 CEBPB PSMA1 PDE3B COPB1 PIR39085
GH11H014544 1.1 Ensembl ENCODE 11.9 -99.2 -99155 1 BACH1 EBF1 CEBPG BATF YY1 ZNF316 ATF7 TRIM24 NFE2 ETV6 PSMA1 PDE3B ENSG00000256206 PIR39085
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PDE3B on UCSC Golden Path with GeneCards custom track

Promoters for PDE3B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000037327 1244 3401 ATF1 MLX ARID4B SIN3A FEZF1 DMAP1 TCF12 ZNF766 GLIS2 ELK1

Genomic Locations for PDE3B Gene

Genomic Locations for PDE3B Gene
chr11:14,643,656-14,872,059
(GRCh38/hg38)
Size:
228,404 bases
Orientation:
Plus strand
chr11:14,665,269-14,893,605
(GRCh37/hg19)

Genomic View for PDE3B Gene

Genes around PDE3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PDE3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PDE3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDE3B Gene

Proteins for PDE3B Gene

  • Protein details for PDE3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13370-PDE3B_HUMAN
    Recommended name:
    cGMP-inhibited 3,5-cyclic phosphodiesterase B
    Protein Accession:
    Q13370
    Secondary Accessions:
    • B7ZM37
    • O00639
    • Q14408
    • Q6SEI4

    Protein attributes for PDE3B Gene

    Size:
    1112 amino acids
    Molecular mass:
    124333 Da
    Cofactor:
    Name=a divalent metal cation; Xref=ChEBI:CHEBI:60240;
    Quaternary structure:
    • Interacts with PIK3CG (By similarity). Interacts with RAPGEF3 and PIK3R6.

    Three dimensional structures from OCA and Proteopedia for PDE3B Gene

    Alternative splice isoforms for PDE3B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PDE3B Gene

Selected DME Specific Peptides for PDE3B Gene

Q13370:
  • SVLENHH
  • LYNDRSVLENHH
  • LDHVEFK
  • AAAMHDYDHPGRTNAFLV
  • EFYEQGD

Post-translational modifications for PDE3B Gene

  • Ubiquitination at Lys33, Lys285, posLast=312312, posLast=339339, Lys546, Lys611, and posLast=943943
  • Modification sites at PhosphoSitePlus

Other Protein References for PDE3B Gene

Domains & Families for PDE3B Gene

Gene Families for PDE3B Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted membrane proteins

Protein Domains for PDE3B Gene

Graphical View of Domain Structure for InterPro Entry

Q13370

UniProtKB/Swiss-Prot:

PDE3B_HUMAN :
  • Belongs to the cyclic nucleotide phosphodiesterase family. PDE3 subfamily.
Family:
  • Belongs to the cyclic nucleotide phosphodiesterase family. PDE3 subfamily.
genes like me logo Genes that share domains with PDE3B: view

Function for PDE3B Gene

Molecular function for PDE3B Gene

GENATLAS Biochemistry:
cAMP,cGMP inhibited nucleotide phosphodiesterase,123 kDa,class III, beta subunit
UniProtKB/Swiss-Prot CatalyticActivity:
Nucleoside 3,5-cyclic phosphate + H(2)O = nucleoside 5-phosphate.
UniProtKB/Swiss-Prot EnzymeRegulation:
Inhibited by cGMP.
UniProtKB/Swiss-Prot Function:
Cyclic nucleotide phosphodiesterase with a dual-specificity for the second messengers cAMP and cGMP, which are key regulators of many important physiological processes. May play a role in fat metabolism. Regulates cAMP binding of RAPGEF3. Through simultaneous binding to RAPGEF3 and PIK3R6 assembles a signaling complex in which the PI3K gamma complex is activated by RAPGEF3 and which is involved in angiogenesis.

Enzyme Numbers (IUBMB) for PDE3B Gene

Phenotypes From GWAS Catalog for PDE3B Gene

Gene Ontology (GO) - Molecular Function for PDE3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004114 3,5-cyclic-nucleotide phosphodiesterase activity EXP,TAS 17884339
GO:0004115 3,5-cyclic-AMP phosphodiesterase activity TAS --
GO:0004119 cGMP-inhibited cyclic-nucleotide phosphodiesterase activity TAS 8884271
GO:0005515 protein binding IPI 17255105
GO:0008081 phosphoric diester hydrolase activity IEA --
genes like me logo Genes that share ontologies with PDE3B: view
genes like me logo Genes that share phenotypes with PDE3B: view

Animal Models for PDE3B Gene

MGI Knock Outs for PDE3B:

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PDE3B Gene

Localization for PDE3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDE3B Gene

Membrane; Multi-pass membrane protein.

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 PDE3B gene
Compartment Confidence
cytosol 5
plasma membrane 4
endoplasmic reticulum 4
golgi apparatus 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PDE3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum ISS --
GO:0005794 Golgi apparatus ISS --
GO:0005829 cytosol TAS --
GO:0016020 membrane IEA,IDA 18586889
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PDE3B: view

Pathways & Interactions for PDE3B Gene

genes like me logo Genes that share pathways with PDE3B: view

SIGNOR curated interactions for PDE3B Gene

Is activated by:

Gene Ontology (GO) - Biological Process for PDE3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001525 angiogenesis IEA --
GO:0006198 cAMP catabolic process IEP 17884339
GO:0007162 negative regulation of cell adhesion IMP 17884339
GO:0007165 signal transduction IEA --
GO:0016525 negative regulation of angiogenesis IMP 21393242
genes like me logo Genes that share ontologies with PDE3B: view

Drugs & Compounds for PDE3B Gene

(55) Drugs for PDE3B Gene - From: DrugBank, ApexBio, DGIdb, FDA Approved Drugs, IUPHAR, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Milrinone Approved Pharma Inhibition, Inhibitor, inhibitor PDE-3 inhibitor 37
Cilostazol Approved Pharma inhibitor PDE3 inhibitor 110
Caffeine Approved Nutra Antagonist, Target 410
Trapidil Approved Pharma Target, inhibitor 1
Amrinone Approved Pharma inhibitor 0

(25) Additional Compounds for PDE3B Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs

(5) Tocris Compounds for PDE3B Gene

Compound Action Cas Number
Eggmanone Potent and selective PDE4 inhibitor; suppresses hedgehog signaling 505068-32-6
Etazolate hydrochloride PDE4 inhibitor 35838-58-5
IBMX PDE inhibitor (non-selective) 28822-58-4
MY-5445 PDE5 inhibitor 78351-75-4
Ro 20-1724 PDE4 inhibitor 29925-17-5

(3) ApexBio Compounds for PDE3B Gene

Compound Action Cas Number
Cilostazol PDE3 inhibitor 73963-72-1
Milrinone PDE-3 inhibitor 78415-72-2
Pimobendan Selective PDE3 inhibitor.Ca2+ channel sensitizer 74150-27-9
genes like me logo Genes that share compounds with PDE3B: view

Drug Products

Transcripts for PDE3B Gene

Unigene Clusters for PDE3B Gene

Phosphodiesterase 3B, cGMP-inhibited:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PDE3B Gene

No ASD Table

Relevant External Links for PDE3B Gene

GeneLoc Exon Structure for
PDE3B
ECgene alternative splicing isoforms for
PDE3B

Expression for PDE3B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PDE3B Gene

mRNA differential expression in normal tissues according to GTEx for PDE3B Gene

This gene is overexpressed in Colon - Sigmoid (x5.6), Adipose - Subcutaneous (x4.9), and Adipose - Visceral (Omentum) (x4.1).

Protein differential expression in normal tissues from HIPED for PDE3B Gene

This gene is overexpressed in Hair follicle (42.5) and Pancreas (22.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PDE3B Gene



NURSA nuclear receptor signaling pathways regulating expression of PDE3B Gene:

PDE3B

SOURCE GeneReport for Unigene cluster for PDE3B Gene:

Hs.445711

mRNA Expression by UniProt/SwissProt for PDE3B Gene:

Q13370-PDE3B_HUMAN
Tissue specificity: Abundant in adipose tissues.

Evidence on tissue expression from TISSUES for PDE3B Gene

  • Liver(4.5)
  • Pancreas(2.4)
  • Muscle(2.3)
  • Heart(2.2)
genes like me logo Genes that share expression patterns with PDE3B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PDE3B Gene

Orthologs for PDE3B Gene

This gene was present in the common ancestor of chordates.

Orthologs for PDE3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDE3B 33 34
  • 99.21 (n)
cow
(Bos Taurus)
Mammalia PDE3B 33 34
  • 88.99 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PDE3B 34
  • 88 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pde3b 34 16 33
  • 85.63 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pde3b 33
  • 84.98 (n)
dog
(Canis familiaris)
Mammalia PDE3B 33 34
  • 84.58 (n)
oppossum
(Monodelphis domestica)
Mammalia PDE3B 34
  • 56 (a)
OneToOne
chicken
(Gallus gallus)
Aves PDE3B 34 33
  • 71.36 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PDE3B 34
  • 68 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii pde3b 33
  • 64.87 (n)
PDE3B 34
  • 63 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 29 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.13290 33
Species where no ortholog for PDE3B 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)
  • 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)
  • 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 (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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PDE3B Gene

ENSEMBL:
Gene Tree for PDE3B (if available)
TreeFam:
Gene Tree for PDE3B (if available)

Paralogs for PDE3B Gene

(3) SIMAP similar genes for PDE3B Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with PDE3B: view

Variants for PDE3B Gene

Sequence variations from dbSNP and Humsavar for PDE3B Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000007880 -- 14,802,935(+) GTTTG(C/T)TTTCT intron-variant
rs1000013199 -- 14,791,172(+) TGTTC(A/G)GGAAT intron-variant
rs1000015080 -- 14,819,338(+) TTACC(C/T)ACTTC intron-variant
rs1000048389 -- 14,677,747(+) CTTCA(C/T)TGTAG intron-variant
rs1000064218 -- 14,775,243(+) CATTG(C/T)TTTCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PDE3B Gene

Variant ID Type Subtype PubMed ID
nsv982986 CNV duplication 23825009
nsv832071 CNV loss 17160897
nsv553561 CNV gain 21841781
nsv517985 CNV loss 19592680
nsv1118490 CNV duplication 24896259
nsv1048243 CNV gain 25217958
nsv1042405 CNV loss 25217958
esv3891931 CNV loss 25118596
esv3625429 CNV gain 21293372
esv3625428 CNV loss 21293372
esv3625427 CNV loss 21293372
esv3625426 CNV loss 21293372
esv3578250 CNV gain 25503493
esv1063774 CNV insertion 17803354

Variation tolerance for PDE3B Gene

Residual Variation Intolerance Score: 11% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.21; 52.24% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PDE3B Gene

Human Gene Mutation Database (HGMD)
PDE3B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PDE3B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDE3B Gene

Disorders for PDE3B Gene

MalaCards: The human disease database

(3) MalaCards diseases for PDE3B Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
pseudohypoparathyroidism, type ii
  • pseudohypoparathyroidism type 2
pelizaeus-merzbacher disease
  • diffuse familial brain sclerosis
lipodystrophy, familial partial, type 2
  • lipoatrophic diabetes
- elite association - COSMIC cancer census association via MalaCards
Search PDE3B in MalaCards View complete list of genes associated with diseases

Relevant External Links for PDE3B

Genetic Association Database (GAD)
PDE3B
Human Genome Epidemiology (HuGE) Navigator
PDE3B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PDE3B
genes like me logo Genes that share disorders with PDE3B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PDE3B Gene

Publications for PDE3B Gene

  1. Characterization of the cDNA and gene encoding human PDE3B, the cGIP1 isoform of the human cyclic GMP-inhibited cyclic nucleotide phosphodiesterase family. (PMID: 8884271) Miki T … Manganiello VC (Genomics 1996) 2 3 4 22 60
  2. Systematic search for single nucleotide polymorphisms in the 5' flanking region of the human phosphodiesterase 3B gene: absence of evidence for major effects of identified polymorphisms on susceptibility to Japanese type 2 diabetes. (PMID: 12765845) Osawa H … Makino H (Molecular genetics and metabolism 2003) 3 22 45 60
  3. Analysis of the insulin-sensitive phosphodiesterase 3B gene in type 2 diabetes. (PMID: 11640991) Sano R … Saito Y (Diabetes research and clinical practice 2001) 3 22 45 60
  4. Differential expression of cGMP-inhibited cyclic nucleotide phosphodiesterases in human hepatoma cell lines. (PMID: 8706823) Murata T … Manganiello VC (FEBS letters 1996) 3 4 22 60
  5. Novel loci for adiponectin levels and their influence on type 2 diabetes and metabolic traits: a multi-ethnic meta-analysis of 45,891 individuals. (PMID: 22479202) Dastani Z … Kathiresan S (PLoS genetics 2012) 3 45 60

Products for PDE3B Gene

Sources for PDE3B Gene

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