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PDE1B phosphodiesterase 1B [ Homo sapiens (human) ]

Gene ID: 5153, updated on 1-Jun-2020

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
109.20200522 current GRCh38.p13 (GCF_000001405.39) 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 Functions

What'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 PubChem

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-GMP phosphodiesterase activity IDA
Inferred from Direct Assay
more info
PubMed 
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
PubMed 
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
    5209..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, ENST00000243052.8
    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_001165975.3NP_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_001315534.2NP_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
    Related
    ENST00000394277.7
    Conserved Domains (1) summary
    pfam00233
    Location:85312
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  6. NM_001315535.2NP_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
    Related
    ENST00000542335.5
    Conserved Domains (1) summary
    pfam00233
    Location:18245
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 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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