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Depdc5 DEP domain containing 5, GATOR1 subcomplex subunit [ Rattus norvegicus (Norway rat) ]

Gene ID: 305464, updated on 4-Jan-2025

Summary

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Official Symbol
Depdc5provided by RGD
Official Full Name
DEP domain containing 5, GATOR1 subcomplex subunitprovided by RGD
Primary source
RGD:1311535
See related
EnsemblRapid:ENSRNOG00000018144 AllianceGenome:RGD:1311535
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable small GTPase binding activity. Predicted to be involved in cellular response to amino acid starvation; negative regulation of TORC1 signaling; and positive regulation of autophagy. Predicted to be located in cytosol; lysosome; and perinuclear region of cytoplasm. Predicted to be part of Cul3-RING ubiquitin ligase complex and GATOR1 complex. Predicted to be active in lysosomal membrane. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy and familial focal epilepsy with variable foci 1. Orthologous to human DEPDC5 (DEP domain containing 5, GATOR1 subcomplex subunit). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Adrenal (RPKM 69.8), Spleen (RPKM 46.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Depdc5 in Genome Data Viewer
Location:
14q21
Exon count:
45
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (81956777..82087392, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (77732297..77862924, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (83089000..83219576, complement)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta Neighboring gene uncharacterized LOC120096506 Neighboring gene uncharacterized LOC134481862 Neighboring gene U6 spliceosomal RNA Neighboring gene ATP synthase subunit epsilon, mitochondrial-like Neighboring gene proline rich 14-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Depdc5 knockout rat: A novel model of mTORopathy. Marsan E, et al. Neurobiol Dis, 2016 May. PMID 26873552
  2. Sestrins inhibit mTORC1 kinase activation through the GATOR complex. Parmigiani A, et al. Cell Rep, 2014 Nov 20. PMID 25457612, Free PMC Article
  3. Mutations in DEPDC5 cause familial focal epilepsy with variable foci. Dibbens LM, et al. Nat Genet, 2013 May. PMID 23542697
  4. KLHL22 activates amino-acid-dependent mTORC1 signalling to promote tumorigenesis and ageing. Chen J, et al. Nature, 2018 May. PMID 29769719
  5. Regulation of mTORC1 by amino acids. Bar-Peled L, et al. Trends Cell Biol, 2014 Jul. PMID 24698685, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables GTPase activator activity IEA
Inferred from Electronic Annotation
more info
  
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
enables small GTPase binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cellular response to amino acid starvation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cellular response to amino acid starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in intracellular signal transduction IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of TORC1 signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of TORC1 signaling ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of autophagy IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of Cul3-RING ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
  
part_of GATOR1 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of GATOR1 complex ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in lysosome ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
GATOR1 complex protein DEPDC5
Names
DEP domain-containing protein 5
GATOR complex protein DEPDC5

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.

mRNA and Protein(s)

  1. NM_001107229.1 → NP_001100699.1  GATOR1 complex protein DEPDC5

    See identical proteins and their annotated locations for NP_001100699.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473963
    UniProtKB/TrEMBL
    A0A8I5Y2I2, A6IK73
    Conserved Domains (2) summary
    cd04449
    Location:1032 → 1113
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:1 → 268
    DUF3608; Protein of unknown function (DUF3608)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086032.1 Reference GRCr8

    Range
    81956777..82087392 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063273173.1 → XP_063129243.1  GATOR1 complex protein DEPDC5 isoform X7

    UniProtKB/TrEMBL
    A0A8I6A1L7, D4A362

  2. XM_063273168.1 → XP_063129238.1  GATOR1 complex protein DEPDC5 isoform X2

    UniProtKB/TrEMBL
    A0A8I5YBC5, A0A8I6A1L7

  3. XM_039091988.2 → XP_038947916.1  GATOR1 complex protein DEPDC5 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1177 → 1258
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:101 → 381
    IML1; Vacuolar membrane-associated protein Iml1

  4. XM_063273171.1 → XP_063129241.1  GATOR1 complex protein DEPDC5 isoform X5

    UniProtKB/TrEMBL
    A0A8I6A1L7

  5. XM_063273174.1 → XP_063129244.1  GATOR1 complex protein DEPDC5 isoform X7

    UniProtKB/TrEMBL
    A0A8I6A1L7, D4A362

  6. XM_063273165.1 → XP_063129235.1  GATOR1 complex protein DEPDC5 isoform X2

    UniProtKB/TrEMBL
    A0A8I5YBC5, A0A8I6A1L7

  7. XM_039091990.2 → XP_038947918.1  GATOR1 complex protein DEPDC5 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1177 → 1258
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:101 → 381
    IML1; Vacuolar membrane-associated protein Iml1

  8. XM_063273182.1 → XP_063129252.1  GATOR1 complex protein DEPDC5 isoform X15

    UniProtKB/TrEMBL
    A0A8I6A1L7

  9. XM_017599214.3 → XP_017454703.1  GATOR1 complex protein DEPDC5 isoform X13

    UniProtKB/TrEMBL
    A0A8I6A1L7, A0A8I6A374
    Related
    ENSRNOP00000086876.1, ENSRNOT00000101652.2
    Conserved Domains (2) summary
    cd04449
    Location:1176 → 1257
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:107 → 381
    DUF3608; Protein of unknown function (DUF3608)

  10. XM_039091986.2 → XP_038947914.1  GATOR1 complex protein DEPDC5 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1177 → 1258
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:101 → 381
    IML1; Vacuolar membrane-associated protein Iml1

  11. XM_017599213.3 → XP_017454702.1  GATOR1 complex protein DEPDC5 isoform X10

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1145 → 1226
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:107 → 381
    DUF3608; Protein of unknown function (DUF3608)

  12. XM_017599211.3 → XP_017454700.1  GATOR1 complex protein DEPDC5 isoform X5

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1167 → 1248
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:107 → 381
    DUF3608; Protein of unknown function (DUF3608)

  13. XM_017599212.3 → XP_017454701.1  GATOR1 complex protein DEPDC5 isoform X7

    UniProtKB/TrEMBL
    A0A8I6A1L7, D4A362
    Related
    ENSRNOP00000061924.2, ENSRNOT00000067694.4
    Conserved Domains (2) summary
    cd04449
    Location:1154 → 1235
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:107 → 381
    DUF3608; Protein of unknown function (DUF3608)

  14. XM_008770289.4 → XP_008768511.1  GATOR1 complex protein DEPDC5 isoform X2

    See identical proteins and their annotated locations for XP_008768511.1

    UniProtKB/TrEMBL
    A0A8I5YBC5, A0A8I6A1L7
    Related
    ENSRNOP00000076509.1, ENSRNOT00000113787.2
    Conserved Domains (2) summary
    cd04449
    Location:1176 → 1257
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:107 → 381
    DUF3608; Protein of unknown function (DUF3608)

  15. XM_063273175.1 → XP_063129245.1  GATOR1 complex protein DEPDC5 isoform X8

    UniProtKB/TrEMBL
    A0A8I6A1L7

  16. XM_063273181.1 → XP_063129251.1  GATOR1 complex protein DEPDC5 isoform X14

    UniProtKB/TrEMBL
    A0A8I6A1L7

  17. XM_063273167.1 → XP_063129237.1  GATOR1 complex protein DEPDC5 isoform X2

    UniProtKB/TrEMBL
    A0A8I5YBC5, A0A8I6A1L7

  18. XM_063273176.1 → XP_063129246.1  GATOR1 complex protein DEPDC5 isoform X9

    UniProtKB/TrEMBL
    A0A8I6A1L7

  19. XM_063273184.1 → XP_063129254.1  GATOR1 complex protein DEPDC5 isoform X17

    UniProtKB/TrEMBL
    A0A8I6A1L7

  20. XM_063273170.1 → XP_063129240.1  GATOR1 complex protein DEPDC5 isoform X4

    UniProtKB/TrEMBL
    A0A8I6A1L7

  21. XM_063273183.1 → XP_063129253.1  GATOR1 complex protein DEPDC5 isoform X16

    UniProtKB/TrEMBL
    A0A8I6A1L7

  22. XM_063273172.1 → XP_063129242.1  GATOR1 complex protein DEPDC5 isoform X6

    UniProtKB/TrEMBL
    A0A8I6A1L7

  23. XM_063273169.1 → XP_063129239.1  GATOR1 complex protein DEPDC5 isoform X3

    UniProtKB/TrEMBL
    A0A8I6A1L7

  24. XM_063273180.1 → XP_063129250.1  GATOR1 complex protein DEPDC5 isoform X12

    UniProtKB/TrEMBL
    A0A8I6A1L7

  25. XM_039091987.2 → XP_038947915.1  GATOR1 complex protein DEPDC5 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1177 → 1258
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:101 → 381
    IML1; Vacuolar membrane-associated protein Iml1

  26. XM_063273178.1 → XP_063129248.1  GATOR1 complex protein DEPDC5 isoform X11

    UniProtKB/TrEMBL
    A0A8I6A1L7

  27. XM_063273177.1 → XP_063129247.1  GATOR1 complex protein DEPDC5 isoform X10

    UniProtKB/TrEMBL
    A0A8I6A1L7

  28. XM_039091991.2 → XP_038947919.1  GATOR1 complex protein DEPDC5 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1177 → 1258
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:101 → 381
    IML1; Vacuolar membrane-associated protein Iml1

  29. XM_063273166.1 → XP_063129236.1  GATOR1 complex protein DEPDC5 isoform X2

    UniProtKB/TrEMBL
    A0A8I5YBC5, A0A8I6A1L7

  30. XM_039091989.2 → XP_038947917.1  GATOR1 complex protein DEPDC5 isoform X1

    UniProtKB/TrEMBL
    A0A8I6A1L7
    Conserved Domains (2) summary
    cd04449
    Location:1177 → 1258
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:101 → 381
    IML1; Vacuolar membrane-associated protein Iml1

  31. XM_039091998.2 → XP_038947926.1  GATOR1 complex protein DEPDC5 isoform X18

    UniProtKB/TrEMBL
    A0A8I5Y2I2
    Conserved Domains (2) summary
    cd04449
    Location:1008 → 1089
    DEP_DEPDC5-like; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
    pfam12257
    Location:1 → 212
    IML1; Vacuolar membrane-associated protein Iml1
Nucleotide Protein Strain
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