Human Gene DAP3 (ENST00000368336.10_6) from GENCODE V47lift37
  Description: death associated protein 3, transcript variant 1 (from RefSeq NM_033657.2)
Gencode Transcript: ENST00000368336.10_6
Gencode Gene: ENSG00000132676.16_18
Transcript (Including UTRs)
   Position: hg19 chr1:155,658,882-155,708,801 Size: 49,920 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr1:155,679,571-155,708,033 Size: 28,463 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:155,658,882-155,708,801)mRNA (may differ from genome)Protein (398 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RT29_HUMAN
DESCRIPTION: RecName: Full=28S ribosomal protein S29, mitochondrial; Short=MRP-S29; Short=S29mt; AltName: Full=Death-associated protein 3; Short=DAP-3; AltName: Full=Ionizing radiation resistance conferring protein; Flags: Precursor;
FUNCTION: Involved in mediating interferon-gamma-induced cell death.
SUBUNIT: Component of the mitochondrial ribosome small subunit (28S) which comprises a 12S rRNA and about 30 distinct proteins. Interacts with KIAA0141. Interacts with NOA1.
INTERACTION: Q8NC60:NOA1; NbExp=5; IntAct=EBI-355912, EBI-717871;
SUBCELLULAR LOCATION: Mitochondrion.
TISSUE SPECIFICITY: Ubiquitous.
SEQUENCE CAUTION: Sequence=AAA57443.1; Type=Frameshift; Positions=349;

-  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


-  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: 38.12 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1039.20 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 -29.9091-0.329 Picture PostScript Text
3' UTR -230.30768-0.300 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
IPR019368 - Ribosomal_S23/S29_mit
IPR008092 - Ribosomal_S29_mit

Pfam Domains:
PF10236 - Mitochondrial ribosomal death-associated protein 3

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on P51398
FrontTopSide
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 Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0005525 GTP binding

Biological Process:
GO:0006915 apoptotic process
GO:0070125 mitochondrial translational elongation
GO:0070126 mitochondrial translational termination
GO:0097190 apoptotic signaling pathway

Cellular Component:
GO:0005654 nucleoplasm
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005761 mitochondrial ribosome
GO:0005763 mitochondrial small ribosomal subunit
GO:0005840 ribosome
GO:0015935 small ribosomal subunit


-  Descriptions from all associated GenBank mRNAs
  AK022879 - Homo sapiens cDNA FLJ12817 fis, clone NT2RP2002643.
AK298201 - Homo sapiens cDNA FLJ57409 complete cds, highly similar to Mitochondrial 28S ribosomal protein S29.
U18321 - Human ionizing radiation resistance conferring protein mRNA, complete cds.
CR749790 - Homo sapiens mRNA; cDNA DKFZp686G12159 (from clone DKFZp686G12159).
JD564961 - Sequence 545985 from Patent EP1572962.
AK225869 - Homo sapiens mRNA for death-associated protein 3 variant, clone: FCC124C09.
AK302281 - Homo sapiens cDNA FLJ57664 complete cds, highly similar to Mitochondrial 28S ribosomal protein S29.
AK293117 - Homo sapiens cDNA FLJ76982 complete cds, highly similar to Homo sapiens death associated protein 3 (DAP3), transcript variant 2, mRNA.
BC107487 - Homo sapiens death associated protein 3, mRNA (cDNA clone MGC:126059 IMAGE:40032516), complete cds.
BC107488 - Homo sapiens death associated protein 3, mRNA (cDNA clone MGC:126058 IMAGE:40032512), complete cds.
X83544 - H.sapiens DAP-3 mRNA.
JD339469 - Sequence 320493 from Patent EP1572962.
BC002358 - Homo sapiens death associated protein 3, mRNA (cDNA clone IMAGE:2822548).
AB590537 - Synthetic construct DNA, clone: pFN21AE1876, Homo sapiens DAP3 gene for death associated protein 3, without stop codon, in Flexi system.
KJ892436 - Synthetic construct Homo sapiens clone ccsbBroadEn_01830 DAP3 gene, encodes complete protein.
BT019494 - Homo sapiens death associated protein 3 mRNA, complete cds.
JD296450 - Sequence 277474 from Patent EP1572962.
JD317836 - Sequence 298860 from Patent EP1572962.
JD372502 - Sequence 353526 from Patent EP1572962.
JD156636 - Sequence 137660 from Patent EP1572962.
JD269105 - Sequence 250129 from Patent EP1572962.
JD208669 - Sequence 189693 from Patent EP1572962.

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

Protein P51398 (Reactome details) participates in the following event(s):

R-HSA-5368279 MTIF3 binds 28S ribosomal subunit
R-HSA-5419273 Hydrolysis of GTP and dissociation of 28S and 39S subunits
R-HSA-5389849 28S subunit:MTIF3 binds MTIF2:GTP, mRNA, and formylMet-tRNA
R-HSA-5389839 39S subunit binds 28S subunit:mRNA:fMet-tRNA
R-HSA-5389848 TUFM:GTP:aminoacyl-tRNA binds 55S ribosome:mRNA:fMet-tRNA
R-HSA-5389857 Peptide transfer from P-site to A-site (peptide bond formation)
R-HSA-5389842 TUFM hydrolyzes GTP and TUFM:GDP dissociates from 55S ribosome
R-HSA-5419261 55S ribosome with peptidyl-tRNA in A site binds GFM1:GTP
R-HSA-5419281 MRRF binds 55S ribosome:mRNA:tRNA
R-HSA-5419279 Translocation of peptidyl-tRNA from A-site to P-site (and translocation of 55S ribosome by 3 bases along mRNA)
R-HSA-5419264 MTRF1L (MTRF1a) or ICT1 binds stop codon in 55S ribosome:mRNA:peptidyl-tRNA
R-HSA-5419277 GFM2:GTP binds 55S ribosome:mRNA:tRNA:MRRF releasing mRNA and tRNA
R-HSA-5368286 Mitochondrial translation initiation
R-HSA-5419276 Mitochondrial translation termination
R-HSA-5368287 Mitochondrial translation
R-HSA-5389840 Mitochondrial translation elongation
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B4DP59, B4DY62, E7EM60, ENST00000368336.1, ENST00000368336.2, ENST00000368336.3, ENST00000368336.4, ENST00000368336.5, ENST00000368336.6, ENST00000368336.7, ENST00000368336.8, ENST00000368336.9, MRPS29, NM_033657, P51398, Q13044, Q68CT7, Q96Q20, RT29_HUMAN, uc318grk.1, uc318grk.2
UCSC ID: ENST00000368336.10_6
RefSeq Accession: NM_004632.4
Protein: P51398 (aka RT29_HUMAN)

-  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.