Reviewed,
UniProtKB/Swiss-Prot P14270 (PDE4D_RAT)
Last modified
June 16, 2009.
Version 90.
History...
Clusters with 100%,
90%,
50% identity |
Documents (2) |
Third-party data |
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Names and origin
| Protein names | Recommended name: cAMP-specific 3',5'-cyclic phosphodiesterase 4D EC=3.1.4.17 Alternative name(s): DPDE3 | ||
| Gene names |
| ||
| Organism | Rattus norvegicus (Rat) | ||
| 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 | 803 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is not processed. |
| Protein existence | Evidence at protein level. |
General annotation (Comments)
| Function | Regulates the levels of cAMP in the cell. |
| 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. Activated by phosphatidic acid By similarity. |
| Pathway | Purine metabolism; cAMP degradation; AMP from cAMP: step 1/1. |
| Subunit structure | Homodimer for the long isoforms. Isoforms with truncated N-termini are monomeric. Binds ARRB2. Isoform 1 is part of a ternary complex containing PRKAR2A, PRKAR2B and AKAP9 By similarity. Interacts with PDE4DIP. |
| Subcellular location | Cytoplasm. Membrane. Cytoplasm › cytoskeleton. Centrosome. Note: Found in the soluble fraction, associated with membranes, and associated with the cytoskeleton and the centrosome. Ref.11 Ref.13 |
| Induction | Up-regulated by cAMP and follicle-stimulating hormone. Ref.1 |
| Post-translational modification | Isoform 1 is rapidly activated by PKA through phosphorylation. |
| Sequence similarities | Belongs to the cyclic nucleotide phosphodiesterase family. |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Cytoplasm Cytoskeleton Membrane |
| Coding sequence diversity | Alternative splicing |
| Ligand | Metal-binding cAMP |
| Molecular function | Hydrolase |
| PTM | Phosphoprotein |
| Gene Ontology (GO) | |
| Biological process | memory Inferred from expression pattern. Source: RGD regulation of G-protein coupled receptor protein signaling pathwayInferred from direct assay. Source: RGD signal transductionInferred from electronic annotation. Source: InterPro |
| Cellular component | centrosome Inferred from electronic annotation. Source: UniProtKB-SubCell membraneInferred from electronic annotation. Source: UniProtKB-SubCell |
| Molecular function | 3',5'-cyclic-nucleotide phosphodiesterase activity Inferred from electronic annotation. Source: EC metal ion bindingInferred from electronic annotation. Source: UniProtKB-KW |
| Complete GO annotation... | |
Alternative products
| This entry describes 7 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 5 (identifier: P14270-5) Also known as: PDE4D4; 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 1 (identifier: P14270-1) Also known as: PDE4D3; PDE3.3; The sequence of this isoform differs from the canonical sequence as follows: 1-131: Missing. 132-147: KKSRMSWPSSFQGLRR → MMHVNTFPFRRHSWIC | ||||||
| Isoform 2 (identifier: P14270-2) Also known as: PDE3.1; The sequence of this isoform differs from the canonical sequence as follows: 1-264: MEAEGSSVPA...QPSINKATIT → MKEQPSCAGT...TESPFPCLFA | ||||||
| Isoform 3 (identifier: P14270-3) Also known as: PDE3.2; The sequence of this isoform differs from the canonical sequence as follows: 1-297: Missing. | ||||||
| Isoform 4 (identifier: P14270-4) Also known as: PDE4D7; The sequence of this isoform differs from the canonical sequence as follows: 1-56: Missing. 57-147: LPPPPPPSPQ...WPSSFQGLRR → MERNTCDVLS...IAVTSADSTG | ||||||
| Isoform 6 (identifier: P14270-6) Also known as: PDE4D9; The sequence of this isoform differs from the canonical sequence as follows: 1-125: Missing. 126-147: GHRPGLKKSRMSWPSSFQGLRR → MSIIMKPRSRSTSSLRTTEAVC | ||||||
| Isoform 7 (identifier: P14270-7) Also known as: PDE4D6; The sequence of this isoform differs from the canonical sequence as follows: 1-286: Missing. 287-301: ETLQTRHSVSEMASN → MPEANYLLSVSWGYI |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 803 | 803 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | PRO_0000198816 | |||||
Sites | |||||||||
| Metal binding | 461 | 1 | Divalent metal cation 1 By similarity | ||||||
| Metal binding | 497 | 1 | Divalent metal cation 1 By similarity | ||||||
| Metal binding | 498 | 1 | Divalent metal cation 1 By similarity | ||||||
| Metal binding | 498 | 1 | Divalent metal cation 2 By similarity | ||||||
| Metal binding | 615 | 1 | Divalent metal cation 1 By similarity | ||||||
| Binding site | 457 | 1 | cAMP By similarity | ||||||
| Binding site | 615 | 1 | cAMP By similarity | ||||||
| Binding site | 618 | 1 | cAMP By similarity | ||||||
| Binding site | 666 | 1 | cAMP By similarity | ||||||
Amino acid modifications | |||||||||
| Modified residue | 18 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 20 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 192 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 197 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 343 | 1 | Phosphoserine By similarity | ||||||
Natural variations | |||||||||
| Alternative sequence | 1 – 297 | 297 | Missing in isoform 3. | VSP_004582 | |||||
| Alternative sequence | 1 – 286 | 286 | Missing in isoform 7. | VSP_012404 | |||||
| Alternative sequence | 1 – 264 | 264 | MEAEG…KATIT → MKEQPSCAGTGHPSMAGYGR MAPFELAGGPVKRLRTESPF PCLFA in isoform 2. | VSP_004581 | |||||
| Alternative sequence | 1 – 131 | 131 | Missing in isoform 1. | VSP_012398 | |||||
| Alternative sequence | 1 – 125 | 125 | Missing in isoform 6. | VSP_012402 | |||||
| Alternative sequence | 1 – 56 | 56 | Missing in isoform 4. | VSP_012400 | |||||
| Alternative sequence | 57 – 147 | 91 | LPPPP…QGLRR → MERNTCDVLSRSKSASEETL HSCNDEEDPFRGMEPYLVRR LSSRSIQLPPLAFRQLEQTD LRSESENIPRPTSLPLKILP LIAVTSADSTG in isoform 4. | VSP_012401 | |||||
| Alternative sequence | 126 – 147 | 22 | GHRPG…QGLRR → MSIIMKPRSRSTSSLRTTEA VC in isoform 6. | VSP_012403 | |||||
| Alternative sequence | 132 – 147 | 16 | KKSRM…QGLRR → MMHVNTFPFRRHSWIC in isoform 1. | VSP_012399 | |||||
| Alternative sequence | 287 – 301 | 15 | ETLQT…EMASN → MPEANYLLSVSWGYI in isoform 7. | VSP_012405 | |||||
Experimental info | |||||||||
| Sequence conflict | 226 | 1 | A → N in AAA56857. Ref.4 | ||||||
| Sequence conflict | 357 | 1 | S → P in AAQ90405. Ref.9 | ||||||
| Sequence conflict | 480 – 486 | 7 | Missing Ref.5 | ||||||
| Sequence conflict | 641 | 1 | G → E in AAC26969. Ref.4 | ||||||
| Sequence conflict | 757 | 1 | C → Y in AAA56857. Ref.4 | ||||||
Sequences
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References
| [1] | "The mRNA encoding a high-affinity cAMP phosphodiesterase is regulated by hormones and cAMP." Swinnen J.V., Joseph D.R., Conti M. Proc. Natl. Acad. Sci. U.S.A. 86:8197-8201(1989) [PubMed: 2554303] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), INDUCTION. Tissue: Testis. |
| [2] | "The ratPDE3/IVd phosphodiesterase gene codes for multiple proteins differentially activated by cAMP-dependent protein kinase." Sette C., Vicini E., Conti M. J. Biol. Chem. 269:18271-18274(1994) [PubMed: 8034568] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2 AND 3). |
| [3] | Conti M. Submitted (OCT-1997) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION TO 6. |
| [4] | "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: 7958996] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 226-803 (ISOFORM 1), NUCLEOTIDE SEQUENCE [MRNA] OF 253-803 (ISOFORM 2). |
| [5] | "Structure of two rat genes coding for closely related rolipram-sensitive cAMP phosphodiesterases. Multiple mRNA variants originate from alternative splicing and multiple start sites." Monaco L., Vicini E., Conti M. J. Biol. Chem. 269:347-357(1994) [PubMed: 8276818] [Abstract] Cited for: NUCLEOTIDE SEQUENCE (ISOFORMS 2 AND 3). Strain: Wistar. |
| [6] | Erratum Monaco L., Vicini E., Conti M. J. Biol. Chem. 269:20806-20806(1994) |
| [7] | "Characterization of a cAMP-specific phosphodiesterase variant (PDE4D4) expressed in the rat brain." Jin S.-L.C., Kuo W.-P., Conti M. Submitted (OCT-1997) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE (ISOFORM 5). Strain: Sprague-Dawley. Tissue: Brain. |
| [8] | "Cloning and characterization of novel PDE4D isoforms PDE4D6 and PDE4D7." Wang D., Deng C., Bugaj-Gaweda B., Kwan M., Gunwaldsen C., Leonard C., Xin X., Hu Y., Unterbeck A., De Vivo M. Cell. Signal. 15:883-891(2003) [PubMed: 12834813] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 4 AND 7). Strain: Sprague-Dawley. |
| [9] | "Novel PDE4D isoform, PDE4D9." Gaweda B., De Vivo M., Wang D. Submitted (SEP-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE (ISOFORM 6). |
| [10] | "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: 2546153] [Abstract] Cited for: NUCLEOTIDE SEQUENCE OF 224-672. Tissue: Testis. |
| [11] | "Phosphorylation-mediated activation and translocation of the cyclic AMP-specific phosphodiesterase PDE4D3 by cyclic AMP-dependent protein kinase and mitogen-activated protein kinases. A potential mechanism allowing for the coordinated regulation of PDE4D activity and targeting." Liu H., Maurice D.H. J. Biol. Chem. 274:10557-10565(1999) [PubMed: 10187850] [Abstract] Cited for: PHOSPHORYLATION, SUBCELLULAR LOCATION. |
| [12] | "Myomegalin is a novel protein of the Golgi/centrosome that interacts with a cyclic nucleotide phosphodiesterase." Verde I., Pahlke G., Salanova M., Zhang G., Wang S., Coletti D., Onuffer J., Jin S.-L.C., Conti M. J. Biol. Chem. 276:11189-11198(2001) [PubMed: 11134006] [Abstract] Cited for: INTERACTION WITH PDE4DIP. |
| [13] | "Phosphodiesterase 4D and protein kinase a type II constitute a signaling unit in the centrosomal area." Tasken K.A., Collas P., Kemmner W.A., Witczak O., Conti M., Tasken K. J. Biol. Chem. 276:21999-22002(2001) [PubMed: 11285255] [Abstract] Cited for: SUBCELLULAR LOCATION, INTERACTION WITH THE CENTROSOME (ISOFORM 1). |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| U09457 mRNA. Translation: AAB81869.1. U09456 mRNA. Translation: AAA20393.1. L27059 mRNA. Translation: AAA56857.1. L27060 mRNA. Translation: AAC26969.1. U01280 U01279 Unassigned DNA. Translation: AAA18925.1. U01280 U01279 Unassigned DNA. Translation: AAA18924.1. U09455 mRNA. Translation: AAA20401.1. AF031373 mRNA. Translation: AAB95266.1. AF536979 mRNA. Translation: AAN10121.1. AY388961 mRNA. Translation: AAQ90405.1. AF536974 mRNA. Translation: AAN10116.1. | |
| IPI | IPI00203378. IPI00230929. IPI00337259. IPI00391626. IPI00515793. IPI00515813. IPI00515827. |
| PIR | B53109. I61259. |
| RefSeq | NP_001106799.1. NP_001106800.1. NP_058728.1. |
| UniGene | Rn.163460 Rn.95959 |
3D structure databases | |
| HSSP | HSSP built from PDB template 1OYN based on UniProtKB Q08499. |
| SMR | P14270. Positions 383-708. |
| ModBase | Search... |
PTM databases | |
| PhosphoSite | P14270. |
Proteomic databases | |
| PRIDE | P14270. |
Genome annotation databases | |
| GeneID | 24627. |
| KEGG | rno:24627. |
Organism-specific databases | |
| RGD | 3281. Pde4d. |
Phylogenomic databases | |
| HOVERGEN | P14270. |
Enzyme and pathway databases | |
| BRENDA | 3.1.4.17. 248. |
Family and domain databases | |
| InterPro | IPR003607. Met-dep_phosphohydro_HD. IPR002073. PDEase. [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 Resources | |
| NextBio | 603898. |
Entry information
| Entry name | PDE4D_RAT | ||||||||
| Accession | Primary (citable) accession number: P14270 Secondary accession number(s): O35470 Q8CG06 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HPI (Human Proteome Initiative) | ||||||||
Relevant documents
| PATHWAY comments Index of metabolic and biosynthesis pathways |
| SIMILARITY comments Index of protein domains and families |

Clusters with


