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Protein

RNA transcription, translation and transport factor protein

Gene

RTRAF

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

RNA-binding protein involved in modulation of mRNA transcription by Polymerase II (PubMed:16950395). Component of the tRNA-splicing ligase complex and is required for tRNA ligation (PubMed:24870230). May be required for RNA transport (PubMed:24608264).3 Publications
(Microbial infection) In case of infection by influenza virus A (IVA), is involved in viral replication (PubMed:21900157).1 Publication

GO - Molecular functioni

  • identical protein binding Source: IntAct
  • RNA binding Source: UniProtKB
  • RNA polymerase II complex binding Source: UniProtKB

GO - Biological processi

  • negative regulation of protein kinase activity Source: UniProtKB
  • positive regulation of transcription by RNA polymerase II Source: UniProtKB
  • RNA transport Source: UniProtKB
  • tRNA splicing, via endonucleolytic cleavage and ligation Source: UniProtKB
  • viral process Source: UniProtKB-KW

Keywordsi

Molecular functionRNA-binding
Biological processHost-virus interaction, Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciMetaCyc:ENSG00000087302-MONOMER
ReactomeiR-HSA-6784531 tRNA processing in the nucleus

Names & Taxonomyi

Protein namesi
Recommended name:
RNA transcription, translation and transport factor proteinImported
Alternative name(s):
CLE7 homolog
Short name:
CLE
Short name:
hCLE1 Publication
Gene namesi
Name:RTRAFImported
Synonyms:C14orf166Imported
ORF Names:CGI-99
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 14

Organism-specific databases

EuPathDBiHostDB:ENSG00000087302.8
HGNCiHGNC:23169 RTRAF
MIMi610858 gene
neXtProtiNX_Q9Y224

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Cytoskeleton, Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi51637
OpenTargetsiENSG00000087302
PharmGKBiPA134953268

Polymorphism and mutation databases

BioMutaiC14orf166
DMDMi20138086

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000899561 – 244RNA transcription, translation and transport factor proteinAdd BLAST244

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei20N6-acetyllysineCombined sources1
Modified residuei62N6-acetyllysineCombined sources1
Modified residuei98N6-acetyllysineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ9Y224
MaxQBiQ9Y224
PaxDbiQ9Y224
PeptideAtlasiQ9Y224
PRIDEiQ9Y224
ProteomicsDBi85609
TopDownProteomicsiQ9Y224

2D gel databases

REPRODUCTION-2DPAGEiQ9Y224

PTM databases

iPTMnetiQ9Y224
PhosphoSitePlusiQ9Y224
SwissPalmiQ9Y224

Expressioni

Tissue specificityi

Widely expressed. Expressed at high level in heart and skeletal muscle. Expressed at intermediate level in liver, pancreas, fetal brain and fetal lung. Weakly expressed in adult brain, adult lung, placenta, fetal liver and fetal kidney. Overexpressed in many brain tumors.1 Publication

Inductioni

(Microbial infection) Up-regulated specifically following influenza A virus (IAV) infection in a viral replication-dependent manner (at protein level) (PubMed:26864902).1 Publication

Gene expression databases

BgeeiENSG00000087302 Expressed in 225 organ(s), highest expression level in secondary oocyte
CleanExiHS_C14orf166
ExpressionAtlasiQ9Y224 baseline and differential
GenevisibleiQ9Y224 HS

Organism-specific databases

HPAiHPA039824

Interactioni

Subunit structurei

Homodimer (Probable). Interacts with FAM98A (via N- and C-terminus) (PubMed:28040436). Interacts with NIN; which may prevent phosphorylation of NIN (PubMed:15147888). Interacts with POLR2A (PubMed:16950395). Component of a tRNA-splicing ligase complex with FAM98B, DDX1 and RTCB (PubMed:21311021, PubMed:24870230, PubMed:24608264).1 Publication6 Publications
(Microbial infection) Interacts with influenza A virus (IAV) RNA polymerase subunits PA, PB1 and PB2, and nucleocapsid NP (PubMed:21900157, PubMed:26864902). Associates with IAV polymerase complexes both in the nucleus and cytosol (PubMed:26864902). Associates with IAV ribonucleoproteins (vRNP) packaged in virions (PubMed:26864902). Interacts with hepatitis C virus core protein p19 (PubMed:21823664).3 Publications

Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

BioGridi119650, 85 interactors
CORUMiQ9Y224
IntActiQ9Y224, 43 interactors
MINTiQ9Y224
STRINGi9606.ENSP00000261700

Structurei

3D structure databases

ProteinModelPortaliQ9Y224
SMRiQ9Y224
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RTRAF family.Curated

Phylogenomic databases

eggNOGiKOG4380 Eukaryota
ENOG410XRFT LUCA
GeneTreeiENSGT00390000005163
HOGENOMiHOG000039763
HOVERGENiHBG051035
InParanoidiQ9Y224
KOiK15433
OMAiPMRILRL
OrthoDBiEOG091G0JMY
PhylomeDBiQ9Y224
TreeFamiTF323606

Family and domain databases

InterProiView protein in InterPro
IPR019265 RTRAF
PANTHERiPTHR15924 PTHR15924, 1 hit
PfamiView protein in Pfam
PF10036 RLL, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 3 potential isoforms that are computationally mapped.Show allAlign All

Q9Y224-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MFRRKLTALD YHNPAGFNCK DETEFRNFIV WLEDQKIRHY KIEDRGNLRN
60 70 80 90 100
IHSSDWPKFF EKYLRDVNCP FKIQDRQEAI DWLLGLAVRL EYGDNAEKYK
110 120 130 140 150
DLVPDNSKTA DNATKNAEPL INLDVNNPDF KAGVMALANL LQIQRHDDYL
160 170 180 190 200
VMLKAIRILV QERLTQDAVA KANQTKEGLP VALDKHILGF DTGDAVLNEA
210 220 230 240
AQILRLLHIE ELRELQTKIN EAIVAVQAII ADPKTDHRLG KVGR
Length:244
Mass (Da):28,068
Last modified:November 1, 1999 - v1
Checksum:iEB2C3C5577A09A2A
GO

Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
G3V4C6G3V4C6_HUMAN
RNA transcription, translation and ...
RTRAF
193Annotation score:
G3V4E7G3V4E7_HUMAN
RNA transcription, translation and ...
RTRAF
68Annotation score:
H0YJB9H0YJB9_HUMAN
RNA transcription, translation and ...
RTRAF
129Annotation score:

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF100755 mRNA Translation: AAD43019.1
AF151857 mRNA Translation: AAD34094.1
BC001722 mRNA Translation: AAH01722.1
CCDSiCCDS9705.1
RefSeqiNP_057123.1, NM_016039.2
UniGeneiHs.534457

Genome annotation databases

EnsembliENST00000261700; ENSP00000261700; ENSG00000087302
GeneIDi51637
KEGGihsa:51637
UCSCiuc010aod.4 human

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF100755 mRNA Translation: AAD43019.1
AF151857 mRNA Translation: AAD34094.1
BC001722 mRNA Translation: AAH01722.1
CCDSiCCDS9705.1
RefSeqiNP_057123.1, NM_016039.2
UniGeneiHs.534457

3D structure databases

ProteinModelPortaliQ9Y224
SMRiQ9Y224
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119650, 85 interactors
CORUMiQ9Y224
IntActiQ9Y224, 43 interactors
MINTiQ9Y224
STRINGi9606.ENSP00000261700

PTM databases

iPTMnetiQ9Y224
PhosphoSitePlusiQ9Y224
SwissPalmiQ9Y224

Polymorphism and mutation databases

BioMutaiC14orf166
DMDMi20138086

2D gel databases

REPRODUCTION-2DPAGEiQ9Y224

Proteomic databases

EPDiQ9Y224
MaxQBiQ9Y224
PaxDbiQ9Y224
PeptideAtlasiQ9Y224
PRIDEiQ9Y224
ProteomicsDBi85609
TopDownProteomicsiQ9Y224

Protocols and materials databases

DNASUi51637
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000261700; ENSP00000261700; ENSG00000087302
GeneIDi51637
KEGGihsa:51637
UCSCiuc010aod.4 human

Organism-specific databases

CTDi51637
DisGeNETi51637
EuPathDBiHostDB:ENSG00000087302.8
GeneCardsiRTRAF
H-InvDBiHIX0131233
HGNCiHGNC:23169 RTRAF
HPAiHPA039824
MIMi610858 gene
neXtProtiNX_Q9Y224
OpenTargetsiENSG00000087302
PharmGKBiPA134953268
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG4380 Eukaryota
ENOG410XRFT LUCA
GeneTreeiENSGT00390000005163
HOGENOMiHOG000039763
HOVERGENiHBG051035
InParanoidiQ9Y224
KOiK15433
OMAiPMRILRL
OrthoDBiEOG091G0JMY
PhylomeDBiQ9Y224
TreeFamiTF323606

Enzyme and pathway databases

BioCyciMetaCyc:ENSG00000087302-MONOMER
ReactomeiR-HSA-6784531 tRNA processing in the nucleus

Miscellaneous databases

ChiTaRSiC14orf166 human
GeneWikiiC14orf166
GenomeRNAii51637
PROiPR:Q9Y224
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000087302 Expressed in 225 organ(s), highest expression level in secondary oocyte
CleanExiHS_C14orf166
ExpressionAtlasiQ9Y224 baseline and differential
GenevisibleiQ9Y224 HS

Family and domain databases

InterProiView protein in InterPro
IPR019265 RTRAF
PANTHERiPTHR15924 PTHR15924, 1 hit
PfamiView protein in Pfam
PF10036 RLL, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRTRAF_HUMAN
AccessioniPrimary (citable) accession number: Q9Y224
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2002
Last sequence update: November 1, 1999
Last modified: November 7, 2018
This is version 150 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries
  4. Human chromosome 14
    Human chromosome 14: entries, gene names and cross-references to MIM
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Main funding by: National Institutes of Health

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