UniProtKB - Q9Y224 (RTRAF_HUMAN)

BLAST

>sp|Q9Y224|RTRAF_HUMAN RNA transcription, translation and transport factor protein OS=Homo sapiens OX=9606 GN=RTRAF PE=1 SV=1
MFRRKLTALDYHNPAGFNCKDETEFRNFIVWLEDQKIRHYKIEDRGNLRNIHSSDWPKFF
EKYLRDVNCPFKIQDRQEAIDWLLGLAVRLEYGDNAEKYKDLVPDNSKTADNATKNAEPL
INLDVNNPDFKAGVMALANLLQIQRHDDYLVMLKAIRILVQERLTQDAVAKANQTKEGLP
VALDKHILGFDTGDAVLNEAAQILRLLHIEELRELQTKINEAIVAVQAIIADPKTDHRLG
KVGR

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History
Entry version 150 (07 Nov 2018)
Sequence version 1 (01 Nov 1999)
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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
Inferred from physical interactionⁱ
- 15147888
RNA binding
Source: UniProtKB
Inferred from direct assayⁱ
- 24608264
RNA polymerase II complex binding
Source: UniProtKB
Inferred from direct assayⁱ
- 16950395

View the complete GO annotation on QuickGO ...

GO - Biological processⁱ

negative regulation of protein kinase activity
Source: UniProtKB
Inferred from mutant phenotypeⁱ
- 15147888
positive regulation of transcription by RNA polymerase II
Source: UniProtKB
Inferred from mutant phenotypeⁱ
- 16950395
RNA transport
Source: UniProtKB
Traceable author statementⁱ
- 24608264
tRNA splicing, via endonucleolytic cleavage and ligation
Source: UniProtKB
Inferred from mutant phenotypeⁱ
- 24870230
viral process Source: UniProtKB-KW

View the complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	RNA-binding
Biological process	Host-virus interaction, Transcription, Transcription regulation

Enzyme and pathway databases

BioCycⁱ	MetaCyc:ENSG00000087302-MONOMER
Reactomeⁱ	R-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
Organismⁱ	Homo sapiens (Human)
Taxonomic identifierⁱ	9606 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 14

Organism-specific databases

EuPathDBⁱ	HostDB:ENSG00000087302.8
Human Gene Nomenclature Database More...HGNCⁱ	HGNC:23169 RTRAF
MIMⁱ	610858 gene
neXtProtⁱ	NX_Q9Y224

Keywords - Cellular componentⁱ

Cytoplasm, Cytoskeleton, Nucleus

Pathology & Biotechⁱ

Organism-specific databases

DisGeNET More...DisGeNETⁱ	51637
Open Targets More...OpenTargetsⁱ	ENSG00000087302
PharmGKBⁱ	PA134953268

Polymorphism and mutation databases

BioMutaⁱ	C14orf166
DMDMⁱ	20138086

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000089956	1 – 244	RNA transcription, translation and transport factor proteinAdd BLAST		244

Amino acid modifications

Feature key	Position(s)	DescriptionActions	Length
Modified residueⁱ	20	N6-acetyllysineCombined sources	1
Modified residueⁱ	62	N6-acetyllysineCombined sources	1
Modified residueⁱ	98	N6-acetyllysineCombined sources	1

Keywords - PTMⁱ

Acetylation

Proteomic databases

EPDⁱ	Q9Y224
MaxQB - The MaxQuant DataBase More...MaxQBⁱ	Q9Y224
PaxDbⁱ	Q9Y224
PeptideAtlas More...PeptideAtlasⁱ	Q9Y224
PRIDEⁱ	Q9Y224
ProteomicsDBⁱ	85609
TopDownProteomicsⁱ	Q9Y224

2D gel databases

REPRODUCTION-2DPAGE More...REPRODUCTION-2DPAGEⁱ	Q9Y224

REPRODUCTION-2DPAGEⁱ

Q9Y224

PTM databases

iPTMnetⁱ	Q9Y224
PhosphoSitePlusⁱ	Q9Y224
SwissPalmⁱ	Q9Y224

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

Bgeeⁱ	ENSG00000087302 Expressed in 225 organ(s), highest expression level in secondary oocyte
CleanExⁱ	HS_C14orf166
ExpressionAtlasⁱ	Q9Y224 baseline and differential
Genevisibleⁱ	Q9Y224 HS

Organism-specific databases

Human Protein Atlas More...HPAⁱ	HPA039824

HPAⁱ

HPA039824

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

With	Entry	#Exp.	IntAct	Notes
itself		2	EBI-1104547,EBI-1104547
FAM98A	Q8NCA5	3	EBI-1104547,EBI-1210765
NIN	Q8N4C6	4	EBI-1104547,EBI-1164022
PA	P31343	4	EBI-1104547,EBI-5800362	From Influenza A virus (strain A/Victoria/3/1975 H3N2).
PA	Q67020	3	EBI-1104547,EBI-11514477	From Influenza A virus (A/WSN/1933(H1N1)).

GO - Molecular functionⁱ

identical protein binding
Source: IntAct
Inferred from physical interactionⁱ
- 15147888
RNA polymerase II complex binding
Source: UniProtKB
Inferred from direct assayⁱ
- 16950395

View the complete GO annotation on QuickGO ...

Protein-protein interaction databases

BioGridⁱ	119650, 85 interactors
CORUMⁱ	Q9Y224
IntActⁱ	Q9Y224, 43 interactors
Molecular INTeraction database More...MINTⁱ	Q9Y224
STRINGⁱ	9606.ENSP00000261700

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	Q9Y224
SMRⁱ	Q9Y224
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Sequence similaritiesⁱ

Belongs to the RTRAF family.Curated

Phylogenomic databases

eggNOGⁱ	KOG4380 Eukaryota ENOG410XRFT LUCA
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00390000005163
HOGENOMⁱ	HOG000039763
HOVERGENⁱ	HBG051035
InParanoidⁱ	Q9Y224
KEGG Orthology (KO) More...KOⁱ	K15433
OMAⁱ	PMRILRL
Database of Orthologous Groups More...OrthoDBⁱ	EOG091G0JMY
PhylomeDBⁱ	Q9Y224
TreeFamⁱ	TF323606

Family and domain databases

InterProⁱ	View protein in InterPro IPR019265 RTRAF
PANTHERⁱ	PTHR15924 PTHR15924, 1 hit
Pfam protein domain database More...Pfamⁱ	View 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 all Align All

Q9Y224-1 [UniParc]FASTA Add to basket

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        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

Computationally mapped potential isoform sequencesⁱ

There are 3 potential isoforms mapped to this entry.BLAST Align Show all Add to basket

Entry	Entry name	Protein names	Gene names	Length	Annotation

G3V4C6	G3V4C6_HUMAN	RNA transcription, translation and ... RNA transcription, translation and transport factor protein	RTRAF	193	Annotation score:
G3V4E7	G3V4E7_HUMAN	RNA transcription, translation and ... RNA transcription, translation and transport factor protein	RTRAF	68	Annotation score:
H0YJB9	H0YJB9_HUMAN	RNA transcription, translation and ... RNA transcription, translation and transport factor protein	RTRAF	129	Annotation 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
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS9705.1
NCBI Reference Sequences More...RefSeqⁱ	NP_057123.1, NM_016039.2
UniGeneⁱ	Hs.534457

Genome annotation databases

Ensemblⁱ	ENST00000261700; ENSP00000261700; ENSG00000087302
GeneIDⁱ	51637
KEGGⁱ	hsa:51637
UCSC genome browser More...UCSCⁱ	uc010aod.4 human

Similar proteinsⁱ

100% Identity
90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q9Y224	RNA transcription, translation and transport factor protein		PONAB		244	UniRef100_Q9Y224
CLE7		HUMAN		244
C14orf166 isoform 1		PANTR		244
Homeobox prox 1		MACMU		244
RNA transcription, translation and transport factor		MACFA		244
+10

Protein	Similar proteins		Species	Score	Length	Source
Q9Y224	RNA transcription, translation and transport factor protein		PONAB		244	UniRef90_Q9Y224
RNA transcription, translation and transport factor protein		MOUSE		244
CLE7		HUMAN		244
C14orf166 isoform 1		PANTR		244
Homeobox prox 1		MACMU		244
+125

Protein	Similar proteins		Species	Score	Length	Source
Q9Y224	RNA transcription, translation and transport factor protein		PONAB		244	UniRef50_Q9Y224
RNA transcription, translation and transport factor protein		MOUSE		244
CLE7		HUMAN		244
C14orf166 isoform 1		PANTR		244
Homeobox prox 1		MACMU		244
+182

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
CCDSⁱ	CCDS9705.1
RefSeqⁱ	NP_057123.1, NM_016039.2
UniGeneⁱ	Hs.534457

3D structure databases

ProteinModelPortalⁱ	Q9Y224
SMRⁱ	Q9Y224
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

BioGridⁱ	119650, 85 interactors
CORUMⁱ	Q9Y224
IntActⁱ	Q9Y224, 43 interactors
MINTⁱ	Q9Y224
STRINGⁱ	9606.ENSP00000261700

PTM databases

iPTMnetⁱ	Q9Y224
PhosphoSitePlusⁱ	Q9Y224
SwissPalmⁱ	Q9Y224

Polymorphism and mutation databases

BioMutaⁱ	C14orf166
DMDMⁱ	20138086

2D gel databases

REPRODUCTION-2DPAGEⁱ	Q9Y224

REPRODUCTION-2DPAGEⁱ

Q9Y224

Proteomic databases

EPDⁱ	Q9Y224
MaxQBⁱ	Q9Y224
PaxDbⁱ	Q9Y224
PeptideAtlasⁱ	Q9Y224
PRIDEⁱ	Q9Y224
ProteomicsDBⁱ	85609
TopDownProteomicsⁱ	Q9Y224

Protocols and materials databases

The DNASU plasmid repository More...DNASUⁱ	51637
Structural Biology Knowledgebase	Search...

Genome annotation databases

Ensemblⁱ	ENST00000261700; ENSP00000261700; ENSG00000087302
GeneIDⁱ	51637
KEGGⁱ	hsa:51637
UCSCⁱ	uc010aod.4 human

Organism-specific databases

CTDⁱ	51637
DisGeNETⁱ	51637
EuPathDBⁱ	HostDB:ENSG00000087302.8
GeneCardsⁱ	RTRAF
H-InvDBⁱ	HIX0131233
HGNCⁱ	HGNC:23169 RTRAF
HPAⁱ	HPA039824
MIMⁱ	610858 gene
neXtProtⁱ	NX_Q9Y224
OpenTargetsⁱ	ENSG00000087302
PharmGKBⁱ	PA134953268
GenAtlas: human gene database More...GenAtlasⁱ	Search...

Phylogenomic databases

eggNOGⁱ	KOG4380 Eukaryota ENOG410XRFT LUCA
GeneTreeⁱ	ENSGT00390000005163
HOGENOMⁱ	HOG000039763
HOVERGENⁱ	HBG051035
InParanoidⁱ	Q9Y224
KOⁱ	K15433
OMAⁱ	PMRILRL
OrthoDBⁱ	EOG091G0JMY
PhylomeDBⁱ	Q9Y224
TreeFamⁱ	TF323606

Enzyme and pathway databases

BioCycⁱ	MetaCyc:ENSG00000087302-MONOMER
Reactomeⁱ	R-HSA-6784531 tRNA processing in the nucleus

Miscellaneous databases

ChiTaRSⁱ	C14orf166 human
GeneWikiⁱ	C14orf166
GenomeRNAiⁱ	51637
Protein Ontology More...PROⁱ	PR:Q9Y224
SOURCEⁱ	Search...

Gene expression databases

Bgeeⁱ	ENSG00000087302 Expressed in 225 organ(s), highest expression level in secondary oocyte
CleanExⁱ	HS_C14orf166
ExpressionAtlasⁱ	Q9Y224 baseline and differential
Genevisibleⁱ	Q9Y224 HS

Family and domain databases

InterProⁱ	View protein in InterPro IPR019265 RTRAF
PANTHERⁱ	PTHR15924 PTHR15924, 1 hit
Pfamⁱ	View protein in Pfam PF10036 RLL, 1 hit
ProtoNetⁱ	Search...

Entry informationⁱ

Entry nameⁱ	RTRAF_HUMAN
Accessionⁱ	Q9Y224Primary (citable) accession number: Q9Y224
Entry historyⁱ	Integrated 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 statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Chordata Protein Annotation Program
Disclaimer	Any 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

SIMILARITY comments
Index of protein domains and families
MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
Uncharacterized protein families (UPF)
List of uncharacterized protein family (UPF) entries
Human chromosome 14
Human chromosome 14: entries, gene names and cross-references to MIM

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UniParc

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UniRef

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Supporting data

UniProtKB - Q9Y224 (RTRAF_HUMAN)

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RNA transcription, translation and transport factor protein

RTRAF

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Cytoskeleton

Nucleus

Cytosol

Other locations

Nucleus

Other locations

Cytoskeleton

Cytosol

Nucleus

Other locations

Keywords - Cellular componenti

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

Polymorphism and mutation databases

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Amino acid modifications

Keywords - PTMi

Proteomic databases

2D gel databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Organism-specific databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

GO - Molecular functioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

Family and domain databases

Sequence databases

Genome annotation databases

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Polymorphism and mutation databases

2D gel databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Miscellaneous databases

Gene expression databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Documents

UniProt is an ELIXIR core data resource

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Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Keywords - PTMⁱ

Expressionⁱ

Interactionⁱ

GO - Molecular functionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ