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PDE4B phosphodiesterase 4B [ Homo sapiens (human) ]

Gene ID: 5142, updated on 3-May-2024

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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See PDE4B in Genome Data Viewer
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_000001.11Genomic Context describing neighboring genes Neighboring gene leptin receptor Neighboring gene polypeptide N-acetylgalactosaminyltransferase 11 pseudogene Neighboring gene Sharpr-MPRA regulatory region 5730 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1145 Neighboring gene RNA, 7SL, cytoplasmic 854, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr1:66306741-66307007 Neighboring gene NANOG hESC enhancer GRCh37_chr1:66469251-66469833 Neighboring gene PDE4B antisense RNA 1 Neighboring gene RNA, U4 small nuclear 88, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr1:66694092-66694275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1146 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1147 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1148 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1149 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1150 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1151 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1152 Neighboring gene Sharpr-MPRA regulatory region 6178 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1154 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1155 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1153 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:66820269-66820769 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1156 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1157 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1158 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1159 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1160 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:66866019-66867218 Neighboring gene uncharacterized LOC105378776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1164 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1165 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:66946325-66946955 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:66946956-66947585 Neighboring gene uncharacterized LOC124904196 Neighboring gene SH3GL interacting endocytic adaptor 1

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?

Phenotypes

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
Genome-wide association of echocardiographic dimensions, brachial artery endothelial function and treadmill exercise responses in the Framingham Heart Study.
EBI GWAS Catalog
Genome-wide association study identifies germline polymorphisms associated with relapse of childhood acute lymphoblastic leukemia.
EBI GWAS Catalog
Identification of germline susceptibility loci in ETV6-RUNX1-rearranged childhood acute lymphoblastic leukemia.
EBI GWAS Catalog
The genetic architecture of economic and political preferences.
EBI GWAS Catalog

HIV-1 interactions

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC126529, DKFZp686F2182

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 protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
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

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
NP_001032417.1
NP_001032418.1
NP_001284369.1
NP_001284370.1
NP_001284371.1
NP_002591.2
XP_005270981.1
XP_005270982.1
XP_006710743.1
XP_016856934.2
XP_047278357.1
XP_054192935.1
XP_054192936.1
XP_054192937.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_029038.1 RefSeqGene

    Range
    5386..587065
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001037339.2NP_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:233470
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  2. NM_001037340.3NP_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:390631
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  3. NM_001037341.2NP_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:405646
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  4. NM_001297440.2NP_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:313553
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam18100
    Location:74189
    PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
  5. NM_001297441.1NP_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:330571
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  6. NM_001297442.2NP_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:172413
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam18100
    Location:1648
    PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
  7. NM_002600.4NP_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:405646
    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

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    65792510..66374579
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047422401.1XP_047278357.1  cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X3

  2. XM_017001445.2XP_016856934.2  cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X1

  3. XM_005270925.3XP_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:186427
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam18100
    Location:162
    PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
  4. XM_006710680.4XP_006710743.1  cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X2

    UniProtKB/TrEMBL
    B4DG71
    Conserved Domains (1) summary
    pfam00233
    Location:200437
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
  5. XM_005270924.4XP_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:186427
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
    pfam18100
    Location:162
    PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    65669985..66252011
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336960.1XP_054192935.1  cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X1

  2. XM_054336961.1XP_054192936.1  cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X2

  3. XM_054336962.1XP_054192937.1  cAMP-specific 3',5'-cyclic phosphodiesterase 4B isoform X3