Format

Send to:

Choose Destination

PTCD3 pentatricopeptide repeat domain 3 [ Homo sapiens (human) ]

Gene ID: 55037, updated on 11-Sep-2019

Summary

Official Symbol
PTCD3provided by HGNC
Official Full Name
pentatricopeptide repeat domain 3provided by HGNC
Primary source
HGNC:HGNC:24717
See related
Ensembl:ENSG00000132300 MIM:614918
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MRP-S39
Expression
Ubiquitous expression in testis (RPKM 14.7), heart (RPKM 11.3) and 25 other tissues See more
Orthologs

Genomic context

See PTCD3 in Genome Data Viewer
Location:
2p11.2
Exon count:
24
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (86106235..86142157)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (86333305..86369280)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374843 Neighboring gene RNA polymerase I subunit A Neighboring gene conserved acetylation island sequence 34 enhancer Neighboring gene small nucleolar RNA, C/D box 94 Neighboring gene inner membrane mitochondrial protein Neighboring gene microRNA 4779 Neighboring gene mitochondrial ribosomal protein L35

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study of blood pressure response to methylphenidate treatment of attention-deficit/hyperactivity disorder.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify pentatricopeptide repeat domain 3 (PTCD3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify pentatricopeptide repeat domain 3 (PTCD3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify pentatricopeptide repeat domain 3 (PTCD3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify pentatricopeptide repeat domain 3 (PTCD3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Mitochondrial translation, organism-specific biosystem (from REACTOME)
    Mitochondrial translation, organism-specific biosystemOf the roughly 1000 human mitochondrial proteins only 13 proteins, all of them hydrophobic inner membrane proteins that are components of the oxidative phosphorylation apparatus, are encoded in the m...
  • Mitochondrial translation elongation, organism-specific biosystem (from REACTOME)
    Mitochondrial translation elongation, organism-specific biosystemTranslation elongation proceeds by cycles of aminoacyl-tRNAs binding, peptide bond formation, and displacement of deacylated tRNAs (reviewed in Christian and Spremulli 2012). In each cycle an aminoac...
  • Mitochondrial translation initiation, organism-specific biosystem (from REACTOME)
    Mitochondrial translation initiation, organism-specific biosystemTranslation initiates with the mitochondrial mRNA binding the 28S subunit:MTIF3 (28S subunit:IF-3Mt, 28S subunit:IF3mt) complex together with MTIF2:GTP (IF-2Mt:GTP, IF2mt:GTP) (reviewed in Christian ...
  • Mitochondrial translation termination, organism-specific biosystem (from REACTOME)
    Mitochondrial translation termination, organism-specific biosystemTranslation is terminated when MTRF1L:GTP (MTRF1a:GTP) recognizes a UAA or UAG termination codon in the mRNA at the A site of the ribosome (Soleimanpour-Lichaei et al. 2007, reviewed in Richter et al...
  • Organelle biogenesis and maintenance, organism-specific biosystem (from REACTOME)
    Organelle biogenesis and maintenance, organism-specific biosystemThis module describes the biogenesis of organelles. Organelles are subcellular structures of distinctive morphology and function. The organelles of human cells include: mitochondria, endoplasmic reti...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20758, DKFZp666K071

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
rRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
rRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
ribosomal small subunit binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ribosomal small subunit binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
mitochondrial translation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitochondrial translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
mitochondrial translational elongation TAS
Traceable Author Statement
more info
 
mitochondrial translational termination TAS
Traceable Author Statement
more info
 
regulation of translation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
mitochondrial inner membrane TAS
Traceable Author Statement
more info
 
mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
 
ribosome IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
pentatricopeptide repeat domain-containing protein 3, mitochondrial
Names
28S ribosomal protein S39, mitochondrial
TRG-15
mitochondrial small ribosomal subunit protein mS39
pentatricopeptide repeat-containing protein 3, mitochondrial
transformation-related gene 15 protein

NCBI Reference Sequences (RefSeq)

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_017952.6NP_060422.4  pentatricopeptide repeat domain-containing protein 3, mitochondrial precursor

    See identical proteins and their annotated locations for NP_060422.4

    Status: VALIDATED

    Source sequence(s)
    AC009309, BC011832, BQ574414, DA479719
    Consensus CDS
    CCDS33235.1
    UniProtKB/Swiss-Prot
    Q96EY7
    Related
    ENSP00000254630.7, ENST00000254630.12
    Conserved Domains (3) summary
    sd00004
    Location:258285
    PPR; PPR repeat [structural motif]
    pfam13041
    Location:254300
    PPR_2; PPR repeat family
    pfam13812
    Location:332367
    PPR_3; Pentatricopeptide repeat domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    86106235..86142157
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center