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PDE1B phosphodiesterase 1B [ Homo sapiens (human) ]

Gene ID: 5153, updated on 7-Dec-2018

Summary

Official Symbol
PDE1Bprovided by HGNC
Official Full Name
phosphodiesterase 1Bprovided by HGNC
Primary source
HGNC:HGNC:8775
See related
Ensembl:ENSG00000123360 MIM:171891
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PDE1B1; PDES1B; HEL-S-79p
Summary
The protein encoded by this gene belongs to the cyclic nucleotide phosphodiesterase (PDE) family, and PDE1 subfamily. Members of the PDE1 family are calmodulin-dependent PDEs that are stimulated by a calcium-calmodulin complex. This PDE has dual-specificity for the second messengers, cAMP and cGMP, with a preference for cGMP as a substrate. cAMP and cGMP function as key regulators of many important physiological processes. Alternatively spliced transcript variants encoding different isoforms have been described for this gene.[provided by RefSeq, Jul 2011]
Expression
Broad expression in brain (RPKM 8.5), fat (RPKM 6.8) and 19 other tissues See more
Orthologs

Genomic context

See PDE1B in Genome Data Viewer
Location:
12q13.2
Exon count:
21
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (54549393..54579239)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (54943177..54973023)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724050 Neighboring gene gametocyte specific factor 1 Neighboring gene NCK associated protein 1 like Neighboring gene protein phosphatase 1 regulatory inhibitor subunit 1A Neighboring gene glycosylation dependent cell adhesion molecule 1 (pseudogene)

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat decreases the intracellular levels of cAMP and CREB ser-133 phosphorylation through a signal transduction pathway involving sequential activation of phosphatidylinositol 3-kinase, AKT, and cyclic nucleoside phosphodiesterases PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Ca-dependent events, organism-specific biosystem (from REACTOME)
    Ca-dependent events, organism-specific biosystemCalcium, as the ion Ca2+, is essential in many biological processes. The majority of Ca2+ in many organisms is bound to phosphates which form skeletal structures and also buffer Ca2+ levels in extrac...
  • CaM pathway, organism-specific biosystem (from REACTOME)
    CaM pathway, organism-specific biosystemCalmodulin (CaM) is a small acidic protein that contains four EF-hand motifs, each of which can bind a calcium ion, therefore it can bind up to four calcium ions. The protein has two approximately sy...
  • Calcium signaling pathway, organism-specific biosystem (from KEGG)
    Calcium signaling pathway, organism-specific biosystemCa2+ that enters the cell from the outside is a principal source of signal Ca2+. Entry of Ca2+ is driven by the presence of a large electrochemical gradient across the plasma membrane. Cells use this...
  • Calcium signaling pathway, conserved biosystem (from KEGG)
    Calcium signaling pathway, conserved biosystemCa2+ that enters the cell from the outside is a principal source of signal Ca2+. Entry of Ca2+ is driven by the presence of a large electrochemical gradient across the plasma membrane. Cells use this...
  • Calmodulin induced events, organism-specific biosystem (from REACTOME)
    Calmodulin induced events, organism-specific biosystemOne important physiological role for Calmodulin is the regulation of adenylylcyclases. Four of the nine known adenylylcyclases are calcium sensitive, in particular type 8 (AC8).
  • Cam-PDE 1 activation, organism-specific biosystem (from REACTOME)
    Cam-PDE 1 activation, organism-specific biosystemHuman Ca2+/calmodulin-dependent phosphodiesterase PDE1 is activated by the binding of calmodulin in the presence of Ca(2+). PDE1 has three subtypes PDE1A, PDE1B and PDE1C and their role is to hydro...
  • DAG and IP3 signaling, organism-specific biosystem (from REACTOME)
    DAG and IP3 signaling, organism-specific biosystemThis pathway describes the generation of DAG and IP3 by the PLCgamma-mediated hydrolysis of PIP2 and the subsequent downstream signaling events.
  • DAP12 interactions, organism-specific biosystem (from REACTOME)
    DAP12 interactions, organism-specific biosystemDNAX activation protein of 12kDa (DAP12) is an immunoreceptor tyrosine-based activation motif (ITAM)-bearing adapter molecule that transduces activating signals in natural killer (NK) and myeloid cel...
  • DAP12 signaling, organism-specific biosystem (from REACTOME)
    DAP12 signaling, organism-specific biosystemIn response to receptor ligation, the tyrosine residues in DAP12's immunoreceptor tyrosine-based activation motif (ITAM) are phosphorylated by Src family kinases. These phosphotyrosines form the dock...
  • Downstream signal transduction, organism-specific biosystem (from REACTOME)
    Downstream signal transduction, organism-specific biosystemThe role of autophosphorylation sites on PDGF receptors are to provide docking sites for downstream signal transduction molecules which contain SH2 domains. The SH2 domain is a conserved motif of aro...
  • EGFR interacts with phospholipase C-gamma, organism-specific biosystem (from REACTOME)
    EGFR interacts with phospholipase C-gamma, organism-specific biosystemActivated epidermal growth factor receptors (EGFR) can stimulate phosphatidylinositol (PI) turnover. Activated EGFR can activate phospholipase C-gamma1 (PLC-gamma1, i.e. PLCG1) which hydrolyses phosp...
  • G Protein Signaling Pathways, organism-specific biosystem (from WikiPathways)
    G Protein Signaling Pathways, organism-specific biosystemG proteins, short for guanine nucleotide-binding proteins, are a family of proteins involved in second messenger cascades. G proteins are so called because they function as "molecular switches". They...
  • G alpha (s) signalling events, organism-specific biosystem (from REACTOME)
    G alpha (s) signalling events, organism-specific biosystemThe general function of the G alpha (s) subunit (Gs) is to activate adenylate cyclase, which in turn produces cAMP, leading to the activation of cAMP-dependent protein kinases (often referred to col...
  • G-protein mediated events, organism-specific biosystem (from REACTOME)
    G-protein mediated events, organism-specific biosystemWhen dissociated Galpha-GTP and Gbeta-gamma can activate or inhibit different signalling cascades and effector proteins. The precise pathways depends on the identity of the alpha and beta/gamma subty...
  • GPCR downstream signaling, organism-specific biosystem (from REACTOME)
    GPCR downstream signaling, organism-specific biosystemG protein-coupled receptors (GPCRs) are classically defined as the receptor, G-protein and downstream effectors, the alpha subunit of the G-protein being the primary signaling molecule. However, it h...
  • Hemostasis, organism-specific biosystem (from REACTOME)
    Hemostasis, organism-specific biosystemHemostasis is a physiological response that culminates in the arrest of bleeding from an injured vessel. Under normal conditions the vascular endothelium supports vasodilation, inhibits platelet adhe...
  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Innate Immune System, organism-specific biosystem (from REACTOME)
    Innate Immune System, organism-specific biosystemInnate immunity encompases the nonspecific part of immunity tha are part of an individual's natural biologic makeup
  • Morphine addiction, organism-specific biosystem (from KEGG)
    Morphine addiction, organism-specific biosystemMorphine is an alkaloid from the plant extracts of opium poppy. Although morphine is highly effective for the treatment of pain, it is also known to be intensely addictive. We now know that the most ...
  • Morphine addiction, conserved biosystem (from KEGG)
    Morphine addiction, conserved biosystemMorphine is an alkaloid from the plant extracts of opium poppy. Although morphine is highly effective for the treatment of pain, it is also known to be intensely addictive. We now know that the most ...
  • NGF signalling via TRKA from the plasma membrane, organism-specific biosystem (from REACTOME)
    NGF signalling via TRKA from the plasma membrane, organism-specific biosystemTrk receptors signal from the plasma membrane and from intracellular membranes, particularly from early endosomes. Signalling from the plasma membrane is fast but transient; signalling from endosomes...
  • Nitric oxide stimulates guanylate cyclase, organism-specific biosystem (from REACTOME)
    Nitric oxide stimulates guanylate cyclase, organism-specific biosystemNitric Oxide (NO) inhibits smooth muscle cell proliferation and migration, oxidation of low-density lipoproteins, and platelet aggregation and adhesion. It can stimulate vasodilatation of the endothe...
  • Olfactory transduction, organism-specific biosystem (from KEGG)
    Olfactory transduction, organism-specific biosystemWithin the compact cilia of the olfactory receptor neurons (ORNs) a cascade of enzymatic activity transduces the binding of an odorant molecule to a receptor into an electrical signal that can be tra...
  • Olfactory transduction, conserved biosystem (from KEGG)
    Olfactory transduction, conserved biosystemWithin the compact cilia of the olfactory receptor neurons (ORNs) a cascade of enzymatic activity transduces the binding of an odorant molecule to a receptor into an electrical signal that can be tra...
  • Opioid Signalling, organism-specific biosystem (from REACTOME)
    Opioid Signalling, organism-specific biosystemOpioids are chemical substances similar to opiates, the active substances found in opium (morphine, codeine etc.). Opioid action is mediated by the receptors for endogenous opioids; peptides such as...
  • PLC beta mediated events, organism-specific biosystem (from REACTOME)
    PLC beta mediated events, organism-specific biosystemThe phospholipase C (PLC) family of enzymes is both diverse and complex. The isoforms beta, gamma and delta (each have subtypes) make up the members of this family. PLC hydrolyzes phosphatidylinosito...
  • PLC-gamma1 signalling, organism-specific biosystem (from REACTOME)
    PLC-gamma1 signalling, organism-specific biosystemThe activation of phosphlipase C-gamma (PLC-gamma) and subsequent mobilization of calcium from intracellular stores are essential for neurotrophin secretion. PLC-gamma is activated through the phosph...
  • Platelet homeostasis, organism-specific biosystem (from REACTOME)
    Platelet homeostasis, organism-specific biosystemUnder normal conditions the vascular endothelium supports vasodilation, inhibits platelet adhesion and activation, suppresses coagulation, enhances fibrin cleavage and is anti-inflammatory in charact...
  • Purine metabolism, organism-specific biosystem (from KEGG)
    Purine metabolism, organism-specific biosystem
    Purine metabolism
  • Purine metabolism, conserved biosystem (from KEGG)
    Purine metabolism, conserved biosystem
    Purine metabolism
  • Renin secretion, organism-specific biosystem (from KEGG)
    Renin secretion, organism-specific biosystemThe aspartyl-protease renin is the key regulator of the renin-angiotensin-aldosterone system, which is critically involved in extracellular fluid volume and blood pressure homeostasis of the body. R...
  • Renin secretion, conserved biosystem (from KEGG)
    Renin secretion, conserved biosystemThe aspartyl-protease renin is the key regulator of the renin-angiotensin-aldosterone system, which is critically involved in extracellular fluid volume and blood pressure homeostasis of the body. R...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by EGFR, organism-specific biosystem (from REACTOME)
    Signaling by EGFR, organism-specific biosystemThe epidermal growth factor receptor (EGFR) is one member of the ERBB family of transmembrane glycoprotein tyrosine receptor kinases (RTK). Binding of EGFR to its ligands induces conformational chang...
  • Signaling by GPCR, organism-specific biosystem (from REACTOME)
    Signaling by GPCR, organism-specific biosystemG protein-coupled receptors (GPCRs; 7TM receptors; seven transmembrane domain receptors; heptahelical receptors; G protein-linked receptors [GPLR]) are the largest family of transmembrane receptors i...
  • Signaling by PDGF, organism-specific biosystem (from REACTOME)
    Signaling by PDGF, organism-specific biosystemPlatelet-derived Growth Factor (PDGF) is a potent stimulator of growth and motility of connective tissue cells such as fibroblasts and smooth muscle cells as well as other cells such as capillary end...
  • Signalling by NGF, organism-specific biosystem (from REACTOME)
    Signalling by NGF, organism-specific biosystemNeurotrophins (NGF, BDNF, NT-3, NT-4/5) play pivotal roles in survival, differentiation, and plasticity of neurons in the peripheral and central nervous system. They are produced, and secreted in mi...
  • Taste transduction, organism-specific biosystem (from KEGG)
    Taste transduction, organism-specific biosystemFive basic tastes are recognized by humans and most other animals - bitter, sweet, sour, salty and umami. In vertebrates, taste stimuli are detected by taste receptor cells (TRCs). At least three dis...
  • Taste transduction, conserved biosystem (from KEGG)
    Taste transduction, conserved biosystemFive basic tastes are recognized by humans and most other animals - bitter, sweet, sour, salty and umami. In vertebrates, taste stimuli are detected by taste receptor cells (TRCs). At least three dis...
  • cGMP effects, organism-specific biosystem (from REACTOME)
    cGMP effects, organism-specific biosystemCyclic guanosine monophosphate (cGMP) is an important secondary messenger synthesized by guanylate cyclases. cGMP has effects on phosphodiesterases (PDE), ion-gated channels, and the cGMP-dependent p...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
3',5'-cyclic-AMP phosphodiesterase activity IDA
Inferred from Direct Assay
more info
PubMed 
3',5'-cyclic-AMP phosphodiesterase activity TAS
Traceable Author Statement
more info
 
3',5'-cyclic-GMP phosphodiesterase activity IDA
Inferred from Direct Assay
more info
PubMed 
3',5'-cyclic-GMP phosphodiesterase activity TAS
Traceable Author Statement
more info
 
calcium- and calmodulin-regulated 3',5'-cyclic-GMP phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
calmodulin binding IEA
Inferred from Electronic Annotation
more info
 
calmodulin-dependent cyclic-nucleotide phosphodiesterase activity TAS
Traceable Author Statement
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
G protein-coupled receptor signaling pathway TAS
Traceable Author Statement
more info
 
apoptotic process TAS
Traceable Author Statement
more info
PubMed 
cellular response to granulocyte macrophage colony-stimulating factor stimulus IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to macrophage colony-stimulating factor stimulus IDA
Inferred from Direct Assay
more info
PubMed 
locomotory behavior IEA
Inferred from Electronic Annotation
more info
 
monocyte differentiation IEP
Inferred from Expression Pattern
more info
PubMed 
regulation of dopamine metabolic process IEA
Inferred from Electronic Annotation
more info
 
response to amphetamine IEA
Inferred from Electronic Annotation
more info
 
serotonin metabolic process IEA
Inferred from Electronic Annotation
more info
 
visual learning IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol TAS
Traceable Author Statement
more info
 
neuronal cell body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B
Names
63 kDa Cam-PDE
calcium/calmodulin-stimulated cyclic nucleotide phosphodiesterase
calmodulin-stimulated phosphodiesterase PDE1B1
cam-PDE 1B
epididymis secretory sperm binding protein Li 79p
phosphodiesterase 1B, calmodulin-dependent
presumed 63kDa form of the type 1 cyclic nucleotide phosphodiesterase family known as PDE1B
NP_000915.1
NP_001159447.1
NP_001275697.1
NP_001275698.1
NP_001302463.1
NP_001302464.1
XP_011536758.1
XP_016874921.1
XP_016874922.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029621.1 RefSeqGene

    Range
    5001..34847
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_000924.4NP_000915.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform 1

    See identical proteins and their annotated locations for NP_000915.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC079310, BC032226, DA254686
    Consensus CDS
    CCDS8882.1
    UniProtKB/Swiss-Prot
    Q01064
    UniProtKB/TrEMBL
    A0A024RB59
    Related
    ENSP00000243052.3, ENST00000243052.7
    Conserved Domains (2) summary
    pfam00233
    Location:222449
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam08499
    Location:81137
    PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
  2. NM_001165975.2NP_001159447.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform 2

    See identical proteins and their annotated locations for NP_001159447.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains a distinct 5' UTR, lacks part of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    BC032226, BP342896, BX538092
    Consensus CDS
    CCDS53800.1
    UniProtKB/Swiss-Prot
    Q01064
    UniProtKB/TrEMBL
    Q7Z364
    Related
    ENSP00000448519.1, ENST00000550620.1
    Conserved Domains (2) summary
    pfam00233
    Location:202429
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam08499
    Location:61117
    PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
  3. NM_001288768.1NP_001275697.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform 3

    See identical proteins and their annotated locations for NP_001275697.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in its 5' UTR and uses a downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Variants 3 and 5 both encode the same isoform (3).
    Source sequence(s)
    AK302899, BC032226, BX538092, DA254686
    UniProtKB/Swiss-Prot
    Q01064
    UniProtKB/TrEMBL
    Q7Z364
    Conserved Domains (1) summary
    pfam00233
    Location:85312
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  4. NM_001288769.1NP_001275698.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform 4

    See identical proteins and their annotated locations for NP_001275698.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains a distinct 5' UTR, lacks part of the 5' coding region, and uses an alternate start codon, compared to variant 1. The encoded isoform (4) has a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AK296422, BC032226, BX538092
    Consensus CDS
    CCDS73477.1
    UniProtKB/Swiss-Prot
    Q01064
    UniProtKB/TrEMBL
    B4DK72, Q7Z364
    Related
    ENSP00000442559.1, ENST00000538346.5
    Conserved Domains (2) summary
    pfam00233
    Location:181408
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam08499
    Location:4096
    PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
  5. NM_001315534.1NP_001302463.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) contains a distinct 5' UTR, lacks part of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) is shorter at the N-terminus compared to isoform 1. Variants 3 and 5 both encode the same isoform (3).
    Source sequence(s)
    AC068789, BC032226, BX538092
    UniProtKB/Swiss-Prot
    Q01064
    UniProtKB/TrEMBL
    Q7Z364
    Conserved Domains (1) summary
    pfam00233
    Location:85312
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  6. NM_001315535.1NP_001302464.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) contains a distinct 5' UTR, lacks part of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (5) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AC068789, AC079310, AK126899, BC032226, BX538092
    UniProtKB/Swiss-Prot
    Q01064
    UniProtKB/TrEMBL
    B3KX78, Q7Z364
    Conserved Domains (1) summary
    pfam00233
    Location:18245
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    54549393..54579239
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011538456.1XP_011536758.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform X1

    Conserved Domains (2) summary
    pfam00233
    Location:223450
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam08499
    Location:82138
    PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
  2. XM_017019433.1XP_016874922.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform X3

    UniProtKB/TrEMBL
    B4DK72
    Conserved Domains (2) summary
    pfam00233
    Location:181408
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam08499
    Location:4096
    PDEase_I_N; 3'5'-cyclic nucleotide phosphodiesterase N-terminal
  3. XM_017019432.1XP_016874921.1  calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B isoform X2

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