P54748 (PDE4A_RAT) Reviewed, UniProtKB/Swiss-Prot
Last modified
April 3, 2013.
Version 102.
History...
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: cAMP-specific 3',5'-cyclic phosphodiesterase 4A EC=3.1.4.17 Alternative name(s): DPDE2 | ||
| Gene names |
| ||
| Organism | Rattus norvegicus (Rat) [Reference proteome] | ||
| Taxonomic identifier | 10116 [NCBI] | ||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus![]() |
Protein attributes
| Sequence length | 844 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Hydrolyzes the second messenger cAMP, which is a key regulator of many important physiological processes By similarity. |
| Catalytic activity | Adenosine 3',5'-cyclic phosphate + H2O = adenosine 5'-phosphate. |
| Cofactor | Binds 2 divalent metal cations per subunit. Site 1 may preferentially bind zinc ions, while site 2 has a preference for magnesium and/or manganese ions By similarity. |
| Enzyme regulation | Inhibited by rolipram. |
| Pathway | Purine metabolism; 3',5'-cyclic AMP degradation; AMP from 3',5'-cyclic AMP: step 1/1. |
| Subunit structure | Interacts with LYN and ARRB2 By similarity. |
| Subcellular location | Cytoplasm › perinuclear region By similarity. |
| Tissue specificity | Isoform 2 is testis specific. |
| Post-translational modification | Proteolytically cleaved by caspase-3 By similarity. Phosphorylation by MAPKAPK2 its activation through PKA phosphorylation. |
| Sequence similarities | Belongs to the cyclic nucleotide phosphodiesterase family. PDE4 subfamily. |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Cytoplasm |
| Coding sequence diversity | Alternative splicing |
| Ligand | Metal-binding cAMP |
| Molecular function | Hydrolase |
| PTM | Isopeptide bond Phosphoprotein Ubl conjugation |
| Technical term | 3D-structure Complete proteome Reference proteome |
| Gene Ontology (GO) | |
| Biological_process | cAMP catabolic process Inferred from direct assay PubMed 21724846. Source: UniProtKB response to drugInferred from expression pattern PubMed 16190900. Source: RGD signal transductionInferred from electronic annotation. Source: InterPro |
| Cellular_component | nucleus Inferred from direct assay PubMed 15242814. Source: RGD perinuclear region of cytoplasmInferred from direct assay PubMed 15242814. Source: RGD |
| Molecular_function | 3',5'-cyclic-AMP phosphodiesterase activity Inferred from direct assay PubMed 15242814. Source: RGD metal ion bindingInferred from electronic annotation. Source: UniProtKB-KW |
| Complete GO annotation... | |
Alternative products
| This entry describes 6 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: P54748-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. | ||||||
| Isoform 2 (identifier: P54748-2) Also known as: PDE4A8; The sequence of this isoform differs from the canonical sequence as follows: 1-102: MEPPAAPSER...TGTGGGSSRR → MPSRKRLTLPRIFIVRKNGNS | ||||||
| Isoform 3 (identifier: P54748-3) The sequence of this isoform differs from the canonical sequence as follows: 1-234: Missing. 235-256: WCLEQLETMQTYRSVSEMASHK → MPLVDFFCETCSKPWLVGWWDQ | ||||||
| Isoform 4 (identifier: P54748-4) Also known as: Medium; The sequence of this isoform differs from the canonical sequence as follows: 1-259: Missing. | ||||||
| Isoform 5 (identifier: P54748-5) Also known as: Short; The sequence of this isoform differs from the canonical sequence as follows: 1-318: Missing. 354-386: Missing. | ||||||
| Isoform 6 (identifier: P54748-6) Also known as: PDE4A10; The sequence of this isoform differs from the canonical sequence as follows: 1-102: MEPPAAPSER...TGTGGGSSRR → ALPLGPESLTHFSFSEEDTLRHPPGRCVS | ||||||
| Note: Incomplete sequence. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||
Molecule processing | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 844 | 844 | cAMP-specific 3',5'-cyclic phosphodiesterase 4A | PRO_0000198808 | |||||||
Regions | |||||||||||
| Nucleotide binding | 419 – 423 | 5 | cAMP By similarity | ||||||||
| Region | 317 – 710 | 394 | Catalytic By similarity | ||||||||
Sites | |||||||||||
| Active site | 419 | 1 | Proton donor By similarity | ||||||||
| Metal binding | 423 | 1 | Divalent metal cation 1 By similarity | ||||||||
| Metal binding | 459 | 1 | Divalent metal cation 1 By similarity | ||||||||
| Metal binding | 460 | 1 | Divalent metal cation 1 By similarity | ||||||||
| Metal binding | 460 | 1 | Divalent metal cation 2 By similarity | ||||||||
| Metal binding | 577 | 1 | Divalent metal cation 1 By similarity | ||||||||
| Binding site | 460 | 1 | cAMP By similarity | ||||||||
| Binding site | 577 | 1 | cAMP By similarity | ||||||||
| Binding site | 628 | 1 | cAMP By similarity | ||||||||
| Site | 69 – 70 | 2 | Cleavage; by caspase-3 By similarity | ||||||||
| Site | 580 | 1 | Binds AMP, but not cAMP By similarity | ||||||||
Amino acid modifications | |||||||||||
| Modified residue | 147 | 1 | Phosphoserine; by MAPKAPK2 Ref.6 | ||||||||
| Modified residue | 160 | 1 | Phosphoserine By similarity | ||||||||
| Cross-link | 344 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO) By similarity | |||||||||
Natural variations | |||||||||||
| Alternative sequence | 1 – 318 | 318 | Missing in isoform 5. | VSP_004569 | |||||||
| Alternative sequence | 1 – 259 | 259 | Missing in isoform 4. | VSP_004568 | |||||||
| Alternative sequence | 1 – 234 | 234 | Missing in isoform 3. | VSP_004566 | |||||||
| Alternative sequence | 1 – 102 | 102 | MEPPA…GSSRR → MPSRKRLTLPRIFIVRKNGN S in isoform 2. | VSP_004565 | |||||||
| Alternative sequence | 1 – 102 | 102 | MEPPA…GSSRR → ALPLGPESLTHFSFSEEDTL RHPPGRCVS in isoform 6. | VSP_038187 | |||||||
| Alternative sequence | 235 – 256 | 22 | WCLEQ…MASHK → MPLVDFFCETCSKPWLVGWW DQ in isoform 3. | VSP_004567 | |||||||
| Alternative sequence | 354 – 386 | 33 | Missing in isoform 5. | VSP_004570 | |||||||
Experimental info | |||||||||||
| Mutagenesis | 147 | 1 | S → A: Abolishes phosphorylation by MAPKAPK2. Ref.6 | ||||||||
| Mutagenesis | 161 | 1 | S → A: Does not affect phosphorylation by MAPKAPK2. Ref.6 | ||||||||
| Sequence conflict | 130 | 1 | A → R in AAF14352. Ref.5 | ||||||||
| Sequence conflict | 465 – 466 | 2 | GV → AL in AAA41848. Ref.4 | ||||||||
| Sequence conflict | 465 – 466 | 2 | GV → AL in AAA41823. Ref.4 | ||||||||
| Sequence conflict | 603 – 604 | 2 | GD → AH in AAA41848. Ref.4 | ||||||||
| Sequence conflict | 603 – 604 | 2 | GD → AH in AAA41823. Ref.4 | ||||||||
| Sequence conflict | 833 | 1 | A → T in AAC37699. Ref.1 | ||||||||
| Sequence conflict | 833 | 1 | A → T in AAA41101. Ref.1 | ||||||||
| Sequence conflict | 833 | 1 | A → T in AAA41102. Ref.1 | ||||||||
| Sequence conflict | 833 | 1 | A → T in AAF14352. Ref.5 | ||||||||
Secondary structure | |||||||||||
Helix Strand Turn | |||||||||||
| Helix | 781 – 787 | 7 | |||||||||
Sequences
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References
| [1] | "Cloning and characterization of mammalian homologs of the Drosophila dunce+ gene." Davis R.L., Takayasu H., Eberwine M., Myres J. Proc. Natl. Acad. Sci. U.S.A. 86:3604-3608(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 3; 4 AND 5). |
| [2] | "Differential CNS expression of alternative mRNA isoforms of the mammalian genes encoding cAMP-specific phosphodiesterases." Bolger G.B., Rodgers L., Riggs M. Gene 149:237-244(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 3; 4 AND 5). Tissue: Brain. |
| [3] | "Alternative splicing of cAMP-specific phosphodiesterase mRNA transcripts. Characterization of a novel tissue-specific isoform, RNPDE4A8." Bolger G.B., McPhee I., Houslay M.D. J. Biol. Chem. 271:1065-1071(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2). Strain: Sprague-Dawley. Tissue: Testis. |
| [4] | "Molecular cloning of rat homologues of the Drosophila melanogaster dunce cAMP phosphodiesterase: evidence for a family of genes." Swinnen J.V., Joseph D.R., Conti M. Proc. Natl. Acad. Sci. U.S.A. 86:5325-5329(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 319-677 (ISOFORMS 3/4). Tissue: Testis. |
| [5] | "Molecular cloning, genomic positioning, promoter identification, and characterization of the novel cyclic AMP-specific phosphodiesterase PDE4A10." Rena G., Begg F., Ross A., MacKenzie C., McPhee I., Campbell L., Huston E., Sullivan M., Houslay M.D. Mol. Pharmacol. 59:996-1011(2001) [PubMed] [Europe PMC] [Abstract] Cited for: PARTIAL NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 6). |
| [6] | "Phosphorylation of cAMP-specific PDE4A5 (phosphodiesterase-4A5) by MK2 (MAPKAPK2) attenuates its activation through protein kinase A phosphorylation." MacKenzie K.F., Wallace D.A., Hill E.V., Anthony D.F., Henderson D.J., Houslay D.M., Arthur J.S., Baillie G.S., Houslay M.D. Biochem. J. 435:755-769(2011) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION AT SER-147, MUTAGENESIS OF SER-147 AND SER-161. |
| [7] | "Determination of the structure of the N-terminal splice region of the cyclic AMP-specific phosphodiesterase RD1 (RNPDE4A1) by 1H NMR and identification of the membrane association domain using chimeric constructs." Smith K.J., Scotland G., Beattie J., Trayer I.P., Houslay M.D. J. Biol. Chem. 271:16703-16711(1996) [PubMed] [Europe PMC] [Abstract] Cited for: STRUCTURE BY NMR OF 1-26 OF ISOFORM 3. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | L27057 mRNA. Translation: AAC27098.1. L36467 mRNA. Translation: AAB00357.1. L27062 mRNA. Translation: AAA56859.1. M25348 mRNA. Translation: AAA41848.1. M28411 mRNA. Translation: AAA41823.1. M26715 mRNA. Translation: AAC37699.1. M26716 mRNA. Translation: AAA41101.1. M26717 mRNA. Translation: AAA41102.1. AF110461 mRNA. Translation: AAF14352.2. | ||||||||||||
| IPI | IPI00188196. IPI00230851. IPI00230852. IPI00230854. IPI00324065. IPI00782258. | ||||||||||||
| PIR | I53865. I67946. | ||||||||||||
| RefSeq | NP_037233.3. NM_013101.3. | ||||||||||||
| UniGene | Rn.91357. | ||||||||||||
3D structure databases | |||||||||||||
| PDBe RCSB PDB PDBj |
| ||||||||||||
| ProteinModelPortal | P54748. | ||||||||||||
| SMR | P54748. Positions 337-698. | ||||||||||||
| ModBase | Search... | ||||||||||||
PTM databases | |||||||||||||
| PhosphoSite | P54748. | ||||||||||||
Proteomic databases | |||||||||||||
| PaxDb | P54748. | ||||||||||||
| PRIDE | P54748. | ||||||||||||
Protocols and materials databases | |||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||
Genome annotation databases | |||||||||||||
| GeneID | 25638. | ||||||||||||
| KEGG | rno:25638. | ||||||||||||
| UCSC | RGD:3279. rat. | ||||||||||||
Organism-specific databases | |||||||||||||
| CTD | 5141. | ||||||||||||
| RGD | 3279. Pde4a. | ||||||||||||
Phylogenomic databases | |||||||||||||
| eggNOG | NOG122287. | ||||||||||||
| HOGENOM | HOG000236297. | ||||||||||||
| HOVERGEN | HBG108239. | ||||||||||||
| InParanoid | P54748. | ||||||||||||
| KO | K01120. | ||||||||||||
| OrthoDB | EOG402WRM. | ||||||||||||
Enzyme and pathway databases | |||||||||||||
| UniPathway | UPA00762; UER00747. | ||||||||||||
Gene expression databases | |||||||||||||
| ArrayExpress | P54748. | ||||||||||||
| Genevestigator | P54748. | ||||||||||||
| GermOnline | ENSRNOG00000020828. Rattus norvegicus. | ||||||||||||
Family and domain databases | |||||||||||||
| Gene3D | 1.10.1300.10. 1 hit. | ||||||||||||
| InterPro | IPR003607. HD/PDEase_dom. IPR023088. PDEase. IPR002073. PDEase_catalytic_dom. IPR023174. PDEase_CS. [Graphical view] | ||||||||||||
| Pfam | PF00233. PDEase_I. 1 hit. [Graphical view] | ||||||||||||
| PRINTS | PR00387. PDIESTERASE1. | ||||||||||||
| SMART | SM00471. HDc. 1 hit. [Graphical view] | ||||||||||||
| PROSITE | PS00126. PDEASE_I. 1 hit. [Graphical view] | ||||||||||||
| ProtoNet | Search... | ||||||||||||
Other | |||||||||||||
| BindingDB | P54748. | ||||||||||||
| ChEMBL | CHEMBL4964. | ||||||||||||
| EvolutionaryTrace | P54748. | ||||||||||||
| NextBio | 607467. | ||||||||||||
| PMAP-CutDB | P54748. | ||||||||||||
Entry information
| Entry name | PDE4A_RAT | ||||||||
| Accession | Primary (citable) accession number: P54748 Secondary accession number(s): P14645, Q9EQR7 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
Relevant documents
| PATHWAY comments Index of metabolic and biosynthesis pathways |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with
