Human Gene PDYN (ENST00000217305.3_7) from GENCODE V47lift37
  Description: prodynorphin, transcript variant 1 (from RefSeq NM_024411.5)
Gencode Transcript: ENST00000217305.3_7
Gencode Gene: ENSG00000101327.9_10
Transcript (Including UTRs)
   Position: hg19 chr20:1,959,405-1,974,704 Size: 15,300 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr20:1,960,969-1,963,730 Size: 2,762 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:1,959,405-1,974,704)mRNA (may differ from genome)Protein (254 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
ReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PDYN_HUMAN
DESCRIPTION: RecName: Full=Proenkephalin-B; AltName: Full=Beta-neoendorphin-dynorphin; AltName: Full=Preprodynorphin; Contains: RecName: Full=Alpha-neoendorphin; Contains: RecName: Full=Beta-neoendorphin; Contains: RecName: Full=Big dynorphin; Short=Big Dyn; Contains: RecName: Full=Dynorphin A(1-17); Short=Dyn-A17; Short=Dynorphin A; Contains: RecName: Full=Dynorphin A(1-13); Contains: RecName: Full=Dynorphin A(1-8); Contains: RecName: Full=Leu-enkephalin; Contains: RecName: Full=Rimorphin; AltName: Full=Dynorphin B; Short=Dyn-B; AltName: Full=Dynorphin B(1-13); Contains: RecName: Full=Leumorphin; AltName: Full=Dynorphin B-29; Flags: Precursor;
FUNCTION: Leu-enkephalins compete with and mimic the effects of opiate drugs. They play a role in a number of physiologic functions, including pain perception and responses to stress (By similarity).
FUNCTION: Dynorphin peptides differentially regulate the kappa opioid receptor. Dynorphin A(1-13) has a typical opiod activity, it is 700 times more potent than Leu-enkephalin (By similarity).
FUNCTION: Leumorphin has a typical opiod activity and may have anti-apoptotic effect (By similarity).
SUBCELLULAR LOCATION: Secreted.
PTM: The N-terminal domain contains 6 conserved cysteines thought to be involved in disulfide bonding and/or processing.
DISEASE: Defects in PDYN are the cause of spinocerebellar ataxia type 23 (SCA23) [MIM:610245]. Spinocerebellar ataxia is a clinically and genetically heterogeneous group of cerebellar disorders. Patients show progressive incoordination of gait and often poor coordination of hands, speech and eye movements, due to degeneration of the cerebellum with variable involvement of the brainstem and spinal cord. SCA23 is an adult-onset autosomal dominant form characterized by slowly progressive gait and limb ataxia, with variable additional features, including peripheral neuropathy and dysarthria.
SIMILARITY: Belongs to the opioid neuropeptide precursor family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PDYN
Diseases sorted by gene-association score: spinocerebellar ataxia 23* (1598), spinocerebellar ataxia type23* (100), temporal lobe epilepsy (19), drug dependence (17), cocaine dependence (15), cutaneous solitary mastocytoma (11), nasal cavity cancer (11), pain agnosia (11), agnosia (10), nasal cavity adenocarcinoma (10), spinocerebellar ataxia 4 (9), heroin dependence (9), anterior segment dysgenesis 2, multiple subtypes (9), shipyard eye (9), spinocerebellar ataxia 36 (8), spinocerebellar ataxia 6 (8), bone cancer (8), opiate dependence (8), dissociative amnesia (7), amnestic disorder (7), spinocerebellar ataxia 15 (7), ataxia (6), retrograde amnesia (6), withdrawal disorder (6), opioid abuse (6), spinocerebellar ataxia 28 (6), cerebellar disease (4), spinocerebellar ataxia 31 (4), alcohol dependence (3), cerebellar ataxia (2), narcolepsy (2), focal epilepsy (2), specific developmental disorder (2), parkinson disease, late-onset (1), disease of mental health (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 64.57 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 110.89 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -86.00227-0.379 Picture PostScript Text
3' UTR -461.601564-0.295 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006024 - Opioid_neupept
IPR000750 - Proenkphlin_B

Pfam Domains:
PF01160 - Vertebrate endogenous opioids neuropeptide

ModBase Predicted Comparative 3D Structure on P01213
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001515 opioid peptide activity
GO:0005184 neuropeptide hormone activity
GO:0031628 opioid receptor binding

Biological Process:
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007218 neuropeptide signaling pathway
GO:0007268 chemical synaptic transmission
GO:0007600 sensory perception
GO:0010469 regulation of receptor activity

Cellular Component:
GO:0005576 extracellular region
GO:0005886 plasma membrane
GO:0030425 dendrite
GO:0043025 neuronal cell body
GO:0043679 axon terminus


-  Descriptions from all associated GenBank mRNAs
  BC026334 - Homo sapiens prodynorphin, mRNA (cDNA clone MGC:26418 IMAGE:4819025), complete cds.
AK295512 - Homo sapiens cDNA FLJ50965 complete cds, highly similar to Beta-neoendorphin-dynorphin precursor.
AK289618 - Homo sapiens cDNA FLJ77726 complete cds, highly similar to Homo sapiens prodynorphin (PDYN), mRNA.
AK316076 - Homo sapiens cDNA, FLJ78975 complete cds, highly similar to Beta-neoendorphin-dynorphin precursor.
AK308747 - Homo sapiens cDNA, FLJ98788.
JD110834 - Sequence 91858 from Patent EP1572962.
JD084512 - Sequence 65536 from Patent EP1572962.
JD266994 - Sequence 248018 from Patent EP1572962.
JD429061 - Sequence 410085 from Patent EP1572962.
JD324763 - Sequence 305787 from Patent EP1572962.
JD269297 - Sequence 250321 from Patent EP1572962.
JD479704 - Sequence 460728 from Patent EP1572962.
JD531087 - Sequence 512111 from Patent EP1572962.
JD360609 - Sequence 341633 from Patent EP1572962.
JD193491 - Sequence 174515 from Patent EP1572962.
JD151319 - Sequence 132343 from Patent EP1572962.
JD499889 - Sequence 480913 from Patent EP1572962.
JD332538 - Sequence 313562 from Patent EP1572962.
JD504603 - Sequence 485627 from Patent EP1572962.
JD101041 - Sequence 82065 from Patent EP1572962.
JD186817 - Sequence 167841 from Patent EP1572962.
JD049920 - Sequence 30944 from Patent EP1572962.
JD316003 - Sequence 297027 from Patent EP1572962.
JD463415 - Sequence 444439 from Patent EP1572962.
JD250068 - Sequence 231092 from Patent EP1572962.
JD268850 - Sequence 249874 from Patent EP1572962.
JD267892 - Sequence 248916 from Patent EP1572962.
JF432676 - Synthetic construct Homo sapiens clone IMAGE:100073914 prodynorphin (PDYN) gene, encodes complete protein.
KJ891775 - Synthetic construct Homo sapiens clone ccsbBroadEn_01169 PDYN gene, encodes complete protein.
JD469679 - Sequence 450703 from Patent EP1572962.
JD210488 - Sequence 191512 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P01213 (Reactome details) participates in the following event(s):

R-HSA-112042 Opioid binds MOR
R-HSA-167427 Opioid dissociates from MOR
R-HSA-167408 The high affinity receptor complex binds to G-protein
R-HSA-112271 The receptor:G-protein complex dissociates
R-HSA-374298 Opioid receptors bind opioid peptides
R-HSA-167419 The receptor:G-protein complex releases GDP
R-HSA-167429 The receptor:G-protein complex binds GTP
R-HSA-749454 The Ligand:GPCR:Gi complex dissociates
R-HSA-749456 Liganded Gi-activating GPCRs bind inactive heterotrimeric G-protein Gi
R-HSA-380073 Liganded Gi-activating GPCR acts as a GEF for Gi
R-HSA-111885 Opioid Signalling
R-HSA-202040 G-protein activation
R-HSA-418594 G alpha (i) signalling events
R-HSA-375276 Peptide ligand-binding receptors
R-HSA-388396 GPCR downstream signalling
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-372790 Signaling by GPCR
R-HSA-500792 GPCR ligand binding
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A8K0Q3, ENST00000217305.1, ENST00000217305.2, NM_024411, P01213, PDYN_HUMAN, uc317ctm.1, uc317ctm.2
UCSC ID: ENST00000217305.3_7
RefSeq Accession: NM_024411.5
Protein: P01213 (aka PDYN_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene PDYN:
ataxias (Hereditary Ataxia Overview)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.