Human Gene MRPS5 (uc002sub.3) Description and Page Index
  Description: Homo sapiens mitochondrial ribosomal protein S5 (MRPS5), nuclear gene encoding mitochondrial protein, mRNA.
RefSeq Summary (NM_031902): Mammalian mitochondrial ribosomal proteins are encoded by nuclear genes and help in protein synthesis within the mitochondrion. Mitochondrial ribosomes (mitoribosomes) consist of a small 28S subunit and a large 39S subunit. They have an estimated 75% protein to rRNA composition compared to prokaryotic ribosomes, where this ratio is reversed. Another difference between mammalian mitoribosomes and prokaryotic ribosomes is that the latter contain a 5S rRNA. Among different species, the proteins comprising the mitoribosome differ greatly in sequence, and sometimes in biochemical properties, which prevents easy recognition by sequence homology. This gene encodes a 28S subunit protein that belongs to the ribosomal protein S5P family. Pseudogenes corresponding to this gene are found on chromosomes 4q, 5q, and 18q. [provided by RefSeq, Jul 2008]. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on alignments. ##Evidence-Data-START## Transcript exon combination :: SRR1660803.68495.1, SRR1660805.82721.1 [ECO:0000332] RNAseq introns :: mixed/partial sample support SAMEA1965299, SAMEA1966682 [ECO:0000350] ##Evidence-Data-END## ##RefSeq-Attributes-START## gene product(s) localized to mito. :: reported by MitoCarta MANE Ensembl match :: ENST00000272418.7/ ENSP00000272418.2 RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr2:95,752,952-95,787,754 Size: 34,803 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr2:95,753,102-95,787,536 Size: 34,435 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:95,752,952-95,787,754)mRNA (may differ from genome)Protein (430 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RT05_HUMAN
DESCRIPTION: RecName: Full=28S ribosomal protein S5, mitochondrial; Short=MRP-S5; Short=S5mt;
SUBUNIT: Component of the mitochondrial ribosome small subunit (28S) which comprises a 12S rRNA and about 30 distinct proteins.
SUBCELLULAR LOCATION: Mitochondrion.
SIMILARITY: Belongs to the ribosomal protein S5P family.
SIMILARITY: Contains 1 S5 DRBM domain.

-  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: 45.64 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 1336.49 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -120.20218-0.551 Picture PostScript Text
3' UTR -42.20150-0.281 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
IPR014720 - dsRNA-bd-like
IPR000851 - Ribosomal_S5
IPR005324 - Ribosomal_S5_C
IPR020568 - Ribosomal_S5_D2-typ_fold
IPR014721 - Ribosomal_S5_D2-typ_fold_subgr
IPR013810 - Ribosomal_S5_N
IPR018192 - Ribosomal_S5_N_CS

Pfam Domains:
PF00333 - Ribosomal protein S5, N-terminal domain
PF03719 - Ribosomal protein S5, C-terminal domain

SCOP Domains:
54211 - Ribosomal protein S5 domain 2-like
54768 - dsRNA-binding domain-like

ModBase Predicted Comparative 3D Structure on P82675
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 orthologGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene Details  Gene DetailsGene DetailsGene Details
Gene Sorter  Gene SorterGene SorterGene Sorter
  EnsemblFlyBaseWormBaseSGD
  Protein SequenceProtein SequenceProtein SequenceProtein Sequence
  AlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome

Biological Process:
GO:0006412 translation
GO:0070125 mitochondrial translational elongation
GO:0070126 mitochondrial translational termination

Cellular Component:
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005763 mitochondrial small ribosomal subunit
GO:0005840 ribosome
GO:0022627 cytosolic small ribosomal subunit


-  Descriptions from all associated GenBank mRNAs
  BC000219 - Homo sapiens mitochondrial ribosomal protein S5, mRNA (cDNA clone IMAGE:3353119), partial cds.
AB049940 - Homo sapiens MRPS5 mRNA for mitochondrial ribosomal protein S5, complete cds.
BC014172 - Homo sapiens mitochondrial ribosomal protein S5, mRNA (cDNA clone MGC:20735 IMAGE:4561399), complete cds.
AK055390 - Homo sapiens cDNA FLJ30828 fis, clone FEBRA2001752, weakly similar to PUTATIVE MITOCHONDRIAL 40S RIBOSOMAL PROTEIN S5.
AK124892 - Homo sapiens cDNA FLJ42902 fis, clone BRHIP3012745, highly similar to Homo sapiens mitochondrial ribosomal protein S5 (MRPS5), nuclear gene encoding mitochondrial protein.
AK058160 - Homo sapiens cDNA FLJ25431 fis, clone TST06424.
JD500461 - Sequence 481485 from Patent EP1572962.
JD296336 - Sequence 277360 from Patent EP1572962.
JD189645 - Sequence 170669 from Patent EP1572962.
JD411043 - Sequence 392067 from Patent EP1572962.
KJ894598 - Synthetic construct Homo sapiens clone ccsbBroadEn_03992 MRPS5 gene, encodes complete protein.
DQ892620 - Synthetic construct clone IMAGE:100005250; FLH188379.01X; RZPDo839B0973D mitochondrial ribosomal protein S5 (MRPS5) gene, encodes complete protein; nuclear gene for mitochondrial product.
DQ895860 - Synthetic construct Homo sapiens clone IMAGE:100010320; FLH188375.01L; RZPDo839B0963D mitochondrial ribosomal protein S5 (MRPS5) gene, encodes complete protein; nuclear gene for mitochondrial product.
AK295812 - Homo sapiens cDNA FLJ61282 complete cds, highly similar to Mitochondrial 28S ribosomal protein S5.
CU680814 - Synthetic construct Homo sapiens gateway clone IMAGE:100017655 5' read MRPS5 mRNA.
JD138896 - Sequence 119920 from Patent EP1572962.
JD127975 - Sequence 108999 from Patent EP1572962.
JD338901 - Sequence 319925 from Patent EP1572962.

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

Protein P82675 (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: NM_031902, NP_114108, P82675, Q4ZFY5, Q96LJ6, Q9BWI4, Q9BYC4, RT05_HUMAN
UCSC ID: uc002sub.3
RefSeq Accession: NM_031902
Protein: P82675 (aka RT05_HUMAN)
CCDS: CCDS2010.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_031902.3
exon count: 12CDS single in 3' UTR: no RNA size: 1678
ORF size: 1293CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2561.00frame shift in genome: no % Coverage: 98.99
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.