Human Gene RPL30 (uc003yif.3) Description and Page Index
  Description: Homo sapiens ribosomal protein L30 (RPL30), mRNA.
RefSeq Summary (NM_000989): Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 60S subunit. The protein belongs to the L30E family of ribosomal proteins. It is located in the cytoplasm. This gene is co-transcribed with the U72 small nucleolar RNA gene, which is located in its fourth intron. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: AV761808.1, BE439872.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000287038.8/ ENSP00000287038.3 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr8:99,053,938-99,057,818 Size: 3,881 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr8:99,054,029-99,057,595 Size: 3,567 Coding Exon Count: 4 

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 (chr8:99,053,938-99,057,818)mRNA (may differ from genome)Protein (115 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: RL30_HUMAN
DESCRIPTION: RecName: Full=60S ribosomal protein L30;
SIMILARITY: Belongs to the ribosomal protein L30e family.

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 403.85 RPKM in Ovary
Total median expression: 7302.00 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 -43.93115-0.382 Picture PostScript Text
3' UTR -7.0291-0.077 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
IPR000231 - Ribosomal_L30e
IPR022991 - Ribosomal_L30e_CS
IPR004038 - Ribosomal_L7Ae/L30e/S12e/Gad45

Pfam Domains:
PF01248 - Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

SCOP Domains:
55315 - L30e-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help

3VI6
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P62888
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 orthologGenome BrowserGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsemblFlyBaseWormBaseSGD
 Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence
 AlignmentAlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding

Biological Process:
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0006413 translational initiation
GO:0006614 SRP-dependent cotranslational protein targeting to membrane
GO:0031640 killing of cells of other organism
GO:0050829 defense response to Gram-negative bacterium

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0016020 membrane
GO:0022625 cytosolic large ribosomal subunit
GO:0042788 polysomal ribosome
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK308890 - Homo sapiens cDNA, FLJ98931.
LF385035 - JP 2014500723-A/192538: Polycomb-Associated Non-Coding RNAs.
AL049968 - Homo sapiens mRNA; cDNA DKFZp564A042 (from clone DKFZp564A042).
BC095426 - Homo sapiens ribosomal protein L30, mRNA (cDNA clone MGC:110963 IMAGE:30792764), complete cds.
AK128768 - Homo sapiens cDNA FLJ45223 fis, clone BRCAN2020050.
L05095 - Homo sapiens ribosomal protein L30 mRNA, complete cds.
X79238 - Homo sapiens mRNA for ribosomal protein L30.
AK312102 - Homo sapiens cDNA, FLJ92384, Homo sapiens ribosomal protein L30 (RPL30), mRNA.
KJ892036 - Synthetic construct Homo sapiens clone ccsbBroadEn_01430 RPL30 gene, encodes complete protein.
AB591031 - Synthetic construct DNA, clone: pFN21AE1611, Homo sapiens RPL30 gene for ribosomal protein L30, without stop codon, in Flexi system.
JD027085 - Sequence 8109 from Patent EP1572962.
JD033976 - Sequence 15000 from Patent EP1572962.
JD023176 - Sequence 4200 from Patent EP1572962.
DQ588525 - Homo sapiens piRNA piR-55637, complete sequence.
LF336123 - JP 2014500723-A/143626: Polycomb-Associated Non-Coding RNAs.
D28438 - Homo sapiens mRNA for ribosomal protein L30, 5'UTR region.
LF336124 - JP 2014500723-A/143627: Polycomb-Associated Non-Coding RNAs.
JD403856 - Sequence 384880 from Patent EP1572962.
MA620612 - JP 2018138019-A/192538: Polycomb-Associated Non-Coding RNAs.
MA571700 - JP 2018138019-A/143626: Polycomb-Associated Non-Coding RNAs.
MA571701 - JP 2018138019-A/143627: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03010 - Ribosome

Reactome (by CSHL, EBI, and GO)

Protein P62888 (Reactome details) participates in the following event(s):

R-HSA-72672 The 60S subunit joins the translation initiation complex
R-HSA-156826 Dissociation of L13a from the 60s ribosomal subunit
R-HSA-72673 Release of 40S and 60S subunits from the 80S ribosome
R-HSA-72671 eIF5B:GTP is hydrolyzed and released
R-HSA-156907 Aminoacyl-tRNA binds to the ribosome at the A-site
R-HSA-2408529 Sec-tRNA(Sec):EEFSEC:GTP binds to 80S Ribosome
R-HSA-141691 GTP bound eRF3:eRF1 complex binds the peptidyl tRNA:mRNA:80S Ribosome complex
R-HSA-156915 Translocation of ribosome by 3 bases in the 3' direction
R-HSA-141671 Polypeptide release from the eRF3-GDP:eRF1:mRNA:80S Ribosome complex
R-HSA-156912 Peptide transfer from P-site tRNA to the A-site tRNA
R-HSA-927832 UPF1 binds an mRNP with a termination codon preceding an Exon Junction Complex
R-HSA-927789 Formation of UPF1:eRF3 complex on mRNA with a premature termination codon and no Exon Junction Complex
R-HSA-1799332 Nascent polypeptide:mRNA:ribosome complex binds signal recognition particle (SRP)
R-HSA-156923 Hydrolysis of eEF1A:GTP
R-HSA-5333615 80S:Met-tRNAi:mRNA:SECISBP2:Sec-tRNA(Sec):EEFSEC:GTP is hydrolysed to 80S:Met-tRNAi:mRNA:SECISBP2:Sec and EEFSEC:GDP by EEFSEC
R-HSA-141673 GTP Hydrolysis by eRF3 bound to the eRF1:mRNA:polypeptide:80S Ribosome complex
R-HSA-927889 SMG1 phosphorylates UPF1 (enhanced by Exon Junction Complex)
R-HSA-1799329 Signal peptidase hydrolyzes signal peptide from ribosome-associated nascent protein
R-HSA-1799330 The SRP receptor binds the SRP:nascent peptide:ribosome complex
R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum
R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-156827 L13a-mediated translation
R-HSA-72689 Formation of a pool of free 40S subunits
R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-9010553 Regulation of expression of SLITs and ROBOs
R-HSA-72737 Cap-dependent Translation Initiation
R-HSA-72613 Eukaryotic Translation Initiation
R-HSA-8868773 rRNA processing in the nucleus and cytosol
R-HSA-156902 Peptide chain elongation
R-HSA-2408557 Selenocysteine synthesis
R-HSA-72764 Eukaryotic Translation Termination
R-HSA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-HSA-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-HSA-72766 Translation
R-HSA-376176 Signaling by ROBO receptors
R-HSA-192823 Viral mRNA Translation
R-HSA-72312 rRNA processing
R-HSA-156842 Eukaryotic Translation Elongation
R-HSA-2408522 Selenoamino acid metabolism
R-HSA-927802 Nonsense-Mediated Decay (NMD)
R-HSA-392499 Metabolism of proteins
R-HSA-422475 Axon guidance
R-HSA-168273 Influenza Viral RNA Transcription and Replication
R-HSA-8953854 Metabolism of RNA
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1266738 Developmental Biology
R-HSA-168255 Influenza Life Cycle
R-HSA-1430728 Metabolism
R-HSA-168254 Influenza Infection
R-HSA-5663205 Infectious disease
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: B2R591, NM_000989, NP_000980, P04645, P62888, Q502Z6, RL30_HUMAN
UCSC ID: uc003yif.3
RefSeq Accession: NM_000989
Protein: P62888 (aka RL30_HUMAN)
CCDS: CCDS34928.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_000989.3
exon count: 5CDS single in 3' UTR: no RNA size: 571
ORF size: 348CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 896.00frame shift in genome: no % Coverage: 97.02
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
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.