PDE4B phosphodiesterase 4B [Homo sapiens (human)] - Gene

Summary

Official Symbol: PDE4Bprovided by HGNC
Official Full Name: phosphodiesterase 4Bprovided by HGNC
Primary source: HGNC:HGNC:8781
See related: Ensembl:ENSG00000184588 MIM:600127; AllianceGenome:HGNC:8781
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: DPDE4; PDEIVB
Summary: This gene is a member of the type IV, cyclic AMP (cAMP)-specific, cyclic nucleotide phosphodiesterase (PDE) family. The encoded protein regulates the cellular concentrations of cyclic nucleotides and thereby play a role in signal transduction. Altered activity of this protein has been associated with schizophrenia and bipolar affective disorder. Alternative splicing and the use of alternative promoters results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014]
Expression: Broad expression in bone marrow (RPKM 18.7), brain (RPKM 17.6) and 22 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1p31.3

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (65792510..66374579)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (65669985..66252011)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (66258193..66840262)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Recent advances of Phosphodiesterase 4B in cancer.
Title: Recent advances of Phosphodiesterase 4B in cancer.
Loss of miR-26b-5p promotes gastric cancer progression via miR-26b-5p-PDE4B/CDK8-STAT3 feedback loop.
Title: Loss of miR-26b-5p promotes gastric cancer progression via miR-26b-5p-PDE4B/CDK8-STAT3 feedback loop.
Glioblastoma stem cells reprogram chromatin in vivo to generate selective therapeutic dependencies on DPY30 and phosphodiesterases.
Title: Glioblastoma stem cells reprogram chromatin in vivo to generate selective therapeutic dependencies on DPY30 and phosphodiesterases.
Population genetics of PDE4B (phosphodiesterase-4B) in neglected Native Americans: Implications for cancer pharmacogenetics.
Title: Population genetics of PDE4B (phosphodiesterase-4B) in neglected Native Americans: Implications for cancer pharmacogenetics.
qPCR Analysis Reveals Association of Differential Expression of SRR, NFKB1, and PDE4B Genes With Type 2 Diabetes Mellitus.
Title: qPCR Analysis Reveals Association of Differential Expression of SRR, NFKB1, and PDE4B Genes With Type 2 Diabetes Mellitus.
Long non-coding RNA nuclear enriched abundant transcript 1 (NEAT1) sponges microRNA-124-3p to up-regulate phosphodiesterase 4B (PDE4B) to accelerate the progression of Parkinson's disease.
Title: Long non-coding RNA nuclear enriched abundant transcript 1 (NEAT1) sponges microRNA-124-3p to up-regulate phosphodiesterase 4B (PDE4B) to accelerate the progression of Parkinson's disease.
circPDE4B prevents articular cartilage degeneration and promotes repair by acting as a scaffold for RIC8A and MID1.
Title: circPDE4B prevents articular cartilage degeneration and promotes repair by acting as a scaffold for RIC8A and MID1.
Cardiac Overexpression of PDE4B Blunts beta-Adrenergic Response and Maladaptive Remodeling in Heart Failure.
Title: Cardiac Overexpression of PDE4B Blunts β-Adrenergic Response and Maladaptive Remodeling in Heart Failure.
Genetic Variants Associated With Anxiety and Stress-Related Disorders: A Genome-Wide Association Study and Mouse-Model Study.
Title: Genetic Variants Associated With Anxiety and Stress-Related Disorders: A Genome-Wide Association Study and Mouse-Model Study.
These findings suggest that the disruption of the Myc-PDE4B circuitry can be exploited in the treatment of B cell malignancies.
Title: Disruption of the Myc-PDE4B regulatory circuitry impairs B-cell lymphoma survival.

Submit: New GeneRIF Correction See all GeneRIFs (57)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome wide association study of SNP-, gene-, and pathway-based approaches to identify genes influencing susceptibility to Staphylococcus aureus infections. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association of echocardiographic dimensions, brachial artery endothelial function and treadmill exercise responses in the Framingham Heart Study. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study identifies germline polymorphisms associated with relapse of childhood acute lymphoblastic leukemia. EBI GWAS Catalog EBI GWAS CatalogPubMed
Identification of germline susceptibility loci in ETV6-RUNX1-rearranged childhood acute lymphoblastic leukemia. EBI GWAS Catalog EBI GWAS CatalogPubMed
The genetic architecture of economic and political preferences. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Tat	tat	Cyclic AMP phosphodiesterase inhibitors AV411 and AV1013 inhibit HIV-1 replication and block HIV-1 Tat-induced neurotoxicity in human microglia, suggesting that cyclic AMP phosphodiesterase is involved in the Tat-mediated neurotoxicity	PubMed
	tat	HIV-1 Tat protein, in combination with anti-CD3/CD28 mAbs, promotes IL-2 production and proliferation of primary CD4+ T lymphocytes by recruiting cyclic nucleoside phosphodiesterase 4, resulting in increased susceptibility to HIV-1 infection	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-105808 (e-PCR)
- UniSTS:169474

SHGC-84244 (e-PCR)
- UniSTS:104718

SHGC-80038 (e-PCR)
- UniSTS:101648

AL009956 (e-PCR)
- UniSTS:56091

D1S289E (e-PCR)
- UniSTS:147501

SHGC-149105 (e-PCR)
- UniSTS:173105

SHGC-82313 (e-PCR)
- UniSTS:104250

PDE4B_372 (e-PCR)
- UniSTS:277574

AL034198 (e-PCR)
- UniSTS:94024

D10S2448 (e-PCR)
- UniSTS:474444

G34878 (e-PCR)
- UniSTS:38476

RH64524 (e-PCR)
- UniSTS:59487

D1S2393 (e-PCR)
- UniSTS:66663

SHGC-83655 (e-PCR)
- UniSTS:100976

SHGC-106013 (e-PCR)
- UniSTS:169586

AL009941 (e-PCR)
- UniSTS:63606

G69473 (e-PCR)
- UniSTS:229520

SGC30670 (e-PCR)
- UniSTS:79282

D1S520 (e-PCR)
- UniSTS:30649

SHGC-74957 (e-PCR)
- UniSTS:36561

G34880 (e-PCR)
- UniSTS:65235

AL010057 (e-PCR)
- UniSTS:3028

G16076 (e-PCR)
- UniSTS:14295

G16246 (e-PCR)
- UniSTS:60124

G16244 (e-PCR)
- UniSTS:38623

G16071 (e-PCR)
- UniSTS:49377

SGC32588 (e-PCR)
- UniSTS:16122

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables 3',5'-cyclic-AMP phosphodiesterase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 3',5'-cyclic-AMP phosphodiesterase activity	IDA Inferred from Direct Assay more info	PubMed
enables 3',5'-cyclic-AMP phosphodiesterase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables 3',5'-cyclic-AMP phosphodiesterase activity	ISS Inferred from Sequence or Structural Similarity more info
enables 3',5'-cyclic-AMP phosphodiesterase activity	TAS Traceable Author Statement more info
enables 3',5'-cyclic-GMP phosphodiesterase activity	IBA Inferred from Biological aspect of Ancestor more info
enables cAMP binding	IGI Inferred from Genetic Interaction more info	PubMed
enables calcium channel regulator activity	ISS Inferred from Sequence or Structural Similarity more info
enables gamma-tubulin binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transmembrane transporter binding	IBA Inferred from Biological aspect of Ancestor more info
enables transmembrane transporter binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in T cell receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cAMP catabolic process	IEA Inferred from Electronic Annotation more info
involved_in cAMP-mediated signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to epinephrine stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to lipopolysaccharide	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to xenobiotic stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in leukocyte migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of adenylate cyclase-activating adrenergic receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of relaxation of cardiac muscle	ISS Inferred from Sequence or Structural Similarity more info
involved_in neutrophil chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in neutrophil homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of interleukin-2 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of type II interferon production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of calcium ion transmembrane transport via high voltage-gated calcium channel	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cardiac muscle cell contraction	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Z disc	ISS Inferred from Sequence or Structural Similarity more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	TAS Traceable Author Statement more info
located_in dendritic spine	IEA Inferred from Electronic Annotation more info
located_in excitatory synapse	IEA Inferred from Electronic Annotation more info
part_of gamma-tubulin complex	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
is_active_in perinuclear region of cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
located_in synaptic vesicle	IEA Inferred from Electronic Annotation more info
part_of voltage-gated calcium channel complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: 3',5'-cyclic-AMP phosphodiesterase 4B; cAMP-specific 3',5'-cyclic phosphodiesterase 4B

Names: cAMP-specific phosphodiesterase 4B; dunce-like phosphodiesterase E4; phosphodiesterase 4B, cAMP-specific (phosphodiesterase E4 dunce homolog, Drosophila)

NP_001032416.1

EC 3.1.4.53

NP_001032417.1

EC 3.1.4.53

NP_001032418.1

EC 3.1.4.53

NP_001284369.1

EC 3.1.4.53

NP_001284370.1

EC 3.1.4.53

NP_001284371.1

EC 3.1.4.53

NP_002591.2

EC 3.1.4.53

XP_005270981.1

EC 3.1.4.53

XP_005270982.1

EC 3.1.4.53

XP_006710743.1

EC 3.1.4.53

XP_016856934.2

EC 3.1.4.53

XP_047278357.1

EC 3.1.4.53

XP_054192935.1

EC 3.1.4.53

XP_054192936.1

EC 3.1.4.53

XP_054192937.1

EC 3.1.4.53

NCBI Reference Sequences (RefSeq)

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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

NG_029038.1 RefSeqGene

Range

5386..587065

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001037339.2 → NP_001032416.1 3',5'-cyclic-AMP phosphodiesterase 4B isoform 2

See identical proteins and their annotated locations for NP_001032416.1

Status: REVIEWED

Description

Transcript Variant: This variant (b) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant a. It represents use of an alternate promoter and initiates translation at an alternate start codon. The encoded isoform (2, also known as PDE4B2 or PDE32) has a shorter and distinct N-terminus when compared to isoform 1.

Source sequence(s)

AW519027, BC036108, DC399916, L12686, M97515

Consensus CDS

CCDS30743.1

UniProtKB/TrEMBL

B4DG71

Related

ENSP00000360084.5, ENST00000371045.9

Conserved Domains (1) summary

pfam00233
Location:233 → 470

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
NM_001037340.3 → NP_001032417.1 3',5'-cyclic-AMP phosphodiesterase 4B isoform 3

See identical proteins and their annotated locations for NP_001032417.1

Status: REVIEWED

Description

Transcript Variant: This variant (c) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant a. It represents use of an alternate promoter and initiates translation at an alternate start codon. The encoded isoform (3, also known as PDE4B3) has a shorter and distinct N-terminus when compared to isoform 1.

Source sequence(s)

AB209081, BC036108, BC101480, L12686

Consensus CDS

CCDS30742.1

UniProtKB/TrEMBL

Q59GM8

Related

ENSP00000392947.2, ENST00000423207.6

Conserved Domains (1) summary

pfam00233
Location:390 → 631

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
NM_001037341.2 → NP_001032418.1 3',5'-cyclic-AMP phosphodiesterase 4B isoform 1

See identical proteins and their annotated locations for NP_001032418.1

Status: REVIEWED

Description

Transcript Variant: This variant (d) differs in the 5' UTR, compared to variant a. Both variants a and d encode the same isoform (1, also known as PDE4B1 or Tm72).

Source sequence(s)

AW519027, BC046161, BC071607, BC101480, DA103627

Consensus CDS

CCDS632.1

UniProtKB/Swiss-Prot

A5YW33, O15443, Q07343, Q13945, Q5TEK4, Q5TEK5, Q5TEK6

UniProtKB/TrEMBL

X5DNX5, X5DR82

Related

ENSP00000332116.4, ENST00000329654.8

Conserved Domains (1) summary

pfam00233
Location:405 → 646

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
NM_001297440.2 → NP_001284369.1 3',5'-cyclic-AMP phosphodiesterase 4B isoform 4

Status: REVIEWED

Description

Transcript Variant: This variant (e) differs in the 5' UTR and lacks an alternate exon in the 5' coding region and initiates translation at an alternate downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter and distinct N-terminus when compared to isoform 1.

Source sequence(s)

BC036108, CR749667, DA103627, L12686, M97515

UniProtKB/TrEMBL

X5DR82

Conserved Domains (2) summary

pfam00233
Location:313 → 553

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

pfam18100
Location:74 → 189

PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
NM_001297441.1 → NP_001284370.1 3',5'-cyclic-AMP phosphodiesterase 4B isoform 5

Status: REVIEWED

Description

Transcript Variant: This variant (f) differs in the 5' UTR and contains multiple differences in the 5' coding region, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.

Source sequence(s)

AL357273, AL590783, AW519027, BC036108, BF513098, KJ534917, L12686, M97515

UniProtKB/TrEMBL

X5DR82

Conserved Domains (1) summary

pfam00233
Location:330 → 571

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
NM_001297442.2 → NP_001284371.1 3',5'-cyclic-AMP phosphodiesterase 4B isoform 6

See identical proteins and their annotated locations for NP_001284371.1

Status: REVIEWED

Description

Transcript Variant: This variant (g) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant a. It represents use of an alternate promoter and initiates translation at an alternate start codon. The encoded isoform (6, also known as PDE4B5) has a shorter and distinct N-terminus when compared to isoform 1.

Source sequence(s)

AK290206, BC036108, L12686, M97515

Consensus CDS

CCDS72802.1

UniProtKB/TrEMBL

B4DG71

Related

ENSP00000432592.1, ENST00000480109.2

Conserved Domains (2) summary

pfam00233
Location:172 → 413

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

pfam18100
Location:16 → 48

PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
NM_002600.4 → NP_002591.2 3',5'-cyclic-AMP phosphodiesterase 4B isoform 1

See identical proteins and their annotated locations for NP_002591.2

Status: REVIEWED

Description

Transcript Variant: This variant (a) encodes the longest isoform (1, also referred to as PDE4B1 or Tm72). Both variants a and d encode the same isoform.

Source sequence(s)

AA206316, AA453531, AL513493, BC046161, CN268011, DA126733, L20966

Consensus CDS

CCDS632.1

UniProtKB/Swiss-Prot

A5YW33, O15443, Q07343, Q13945, Q5TEK4, Q5TEK5, Q5TEK6

UniProtKB/TrEMBL

X5DNX5, X5DR82

Related

ENSP00000342637.4, ENST00000341517.9

Conserved Domains (1) summary

pfam00233
Location:405 → 646

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000001.11 Reference GRCh38.p14 Primary Assembly

Range

65792510..66374579

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047422401.1 → XP_047278357.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X3
XM_017001445.2 → XP_016856934.2 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X1
XM_005270925.3 → XP_005270982.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X3

See identical proteins and their annotated locations for XP_005270982.1

UniProtKB/TrEMBL

B4DG71

Conserved Domains (2) summary

pfam00233
Location:186 → 427

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

pfam18100
Location:1 → 62

PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
XM_006710680.4 → XP_006710743.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X2

UniProtKB/TrEMBL

B4DG71

Conserved Domains (1) summary

pfam00233
Location:200 → 437

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
XM_005270924.4 → XP_005270981.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X3

See identical proteins and their annotated locations for XP_005270981.1

UniProtKB/TrEMBL

B4DG71

Conserved Domains (2) summary

pfam00233
Location:186 → 427

PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

pfam18100
Location:1 → 62

PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)

Alternate T2T-CHM13v2.0

Genomic

NC_060925.1 Alternate T2T-CHM13v2.0

Range

65669985..66252011

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054336960.1 → XP_054192935.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X1
XM_054336961.1 → XP_054192936.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X2
XM_054336962.1 → XP_054192937.1 cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X3