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UniProtKB - Q13838 (DX39B_HUMAN)

Entry version 212 (02 Jun 2021)
Sequence version 1 (01 Nov 1996)
Previous versions | rss
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Protein

Spliceosome RNA helicase DDX39B

Gene

DDX39B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<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

Involved in nuclear export of spliced and unspliced mRNA. Assembling component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NFX1 pathway. May undergo several rounds of ATP hydrolysis during assembly of TREX to drive subsequent loading of components such as ALYREF/THOC and CHTOP onto mRNA. Also associates with pre-mRNA independent of ALYREF/THOC4 and the THO complex. Involved in the nuclear export of intronless mRNA; the ATP-bound form is proposed to recruit export adapter ALYREF/THOC4 to intronless mRNA; its ATPase activity is cooperatively stimulated by RNA and ALYREF/THOC4 and ATP hydrolysis is thought to trigger the dissociation from RNA to allow the association of ALYREF/THOC4 and the NXF1-NXT1 heterodimer. Involved in transcription elongation and genome stability.

12 Publications

Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA. Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not influenced by U2AF2; the effect of ALYREF/THOC4 is reported conflictingly with [PubMed:23299939] reporting a stimulatory effect.

2 Publications

(Microbial infection) The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production.

1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

  1. KM=3.3 µM for ATP1 Publication
  1. Vmax=0.126 µM/min/mg enzyme with ATP as substrate1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi89 – 96ATP8

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHelicase, Hydrolase, RNA-binding
Biological processmRNA processing, mRNA splicing, mRNA transport, Transport
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

Pathway Commons web resource for biological pathway data

More...PathwayCommonsi		Q13838

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-HSA-159236, Transport of Mature mRNA derived from an Intron-Containing Transcript
R-HSA-72187, mRNA 3'-end processing
R-HSA-73856, RNA Polymerase II Transcription Termination

SABIO-RK: Biochemical Reaction Kinetics Database

More...SABIO-RKi		Q13838

Protein family/group databases

Transport Classification Database

More...TCDBi		3.A.18.1.1, the nuclear mrna exporter (mrna-e) family

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Spliceosome RNA helicase DDX39BCurated (EC:3.6.4.131 Publication)
Alternative name(s):
56 kDa U2AF65-associated protein
ATP-dependent RNA helicase p47
DEAD box protein UAP56
HLA-B-associated transcript 1 protein
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:DDX39BImported
Synonyms:BAT1, UAP56
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 6

Organism-specific databases

Human Gene Nomenclature Database

More...HGNCi		HGNC:13917, DDX39B

Online Mendelian Inheritance in Man (OMIM)

More...MIMi		142560, gene

neXtProt; the human protein knowledge platform

More...neXtProti		NX_Q13838

Eukaryotic Pathogen, Vector and Host Database Resources

More...VEuPathDBi		HostDB:ENSG00000198563.13

<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

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

<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

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi94 – 96GKT → AAA: Loss of ATPase and helicase activity. 1 Publication3
Mutagenesisi95K → A: Loss of ATPase and helicase activity. 2 Publications1
Mutagenesisi197E → A: Loss of ATPase and helicase activity. 1 Publication1
Mutagenesisi198C → A: No effect on ATPase activity. 1 Publication1
Mutagenesisi199D → A: Increased ATPase activity and loss of helicase activity. 1 Publication1
Mutagenesisi228 – 230SAT → AAA: Decreased ATPase activity and loss of helicase activity. 1 Publication3

Organism-specific databases

DisGeNET

More...DisGeNETi		7919

Open Targets

More...OpenTargetsi		ENSG00000198563

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...PharmGKBi		PA25262

Miscellaneous databases

Pharos NIH Druggable Genome Knowledgebase

More...Pharosi		Q13838, Tbio

Chemistry databases

Drug and drug target database

More...DrugBanki		DB11638, Artenimol

Genetic variation databases

BioMuta curated single-nucleotide variation and disease association database

More...BioMutai		DDX39B

Domain mapping of disease mutations (DMDM)

More...DMDMi		2500529

<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

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemovedCombined sources
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000550712 – 428Spliceosome RNA helicase DDX39BAdd BLAST427

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei2N-acetylalanineCombined sources1
Modified residuei36N6-acetyllysine; alternateCombined sources1
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section describes <strong>covalent linkages</strong> of various types formed <strong>between two proteins (interchain cross-links)</strong> or <strong>between two parts of the same protein (intrachain cross-links)</strong>, except the disulfide bonds that are annotated in the <a href="http://www.uniprot.org/manual/disulfid">'Disulfide bond'</a> subsection.<p><a href='/help/crosslnk' target='_top'>More...</a></p>Cross-linki36Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateCombined sources
Modified residuei38PhosphoserineCombined sources1
Modified residuei41PhosphoserineCombined sources1
Modified residuei172PhosphothreonineCombined sources1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

Encyclopedia of Proteome Dynamics

More...EPDi		Q13838

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		Q13838

MassIVE - Mass Spectrometry Interactive Virtual Environment

More...MassIVEi		Q13838

MaxQB - The MaxQuant DataBase

More...MaxQBi		Q13838

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		Q13838

PeptideAtlas

More...PeptideAtlasi		Q13838

PRoteomics IDEntifications database

More...PRIDEi		Q13838

ProteomicsDB: a multi-organism proteome resource

More...ProteomicsDBi		59701 [Q13838-1]
59702 [Q13838-2]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		Q13838

MetOSite database of methionine sulfoxide sites

More...MetOSitei		Q13838

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...PhosphoSitePlusi		Q13838

SwissPalm database of S-palmitoylation events

More...SwissPalmi		Q13838

<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

Bgee dataBase for Gene Expression Evolution

More...Bgeei		ENSG00000198563, Expressed in left lobe of thyroid gland and 116 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		Q13838, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		Q13838, HS

Organism-specific databases

Human Protein Atlas

More...HPAi		ENSG00000198563, Low tissue specificity

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer, and heterodimer with DDX39A (PubMed:11675789, PubMed:15833825, PubMed:14667819).

Component of the transcription/export (TREX) complex at least composed of ALYREF/THOC4, DDX39B, SARNP/CIP29, CHTOP and the THO subcomplex; TREX seems to have dynamic structure involving ATP-dependent remodeling; in the complex bridges ALYREF/THOC4 and the THO complex, and, in a ATP-dependent manner, ALYREF/THOC4 and SARNP/CIP29 (PubMed:11675789, PubMed:15833825, PubMed:14667819, PubMed:15998806, PubMed:17984224, PubMed:20844015, PubMed:23299939).

Component of the spliceosome.

Interacts directly with U2AF2 (PubMed:9242493).

Interacts with RBM8A, RNPS1 and SRRM1, FYTTD1/UIF, THOC1, MX1 and POLDIP3 (PubMed:12944400, PubMed:15870275, PubMed:19836239, PubMed:21859714, PubMed:22928037).

Interacts with LUZP4 (PubMed:25662211).

14 Publications

(Microbial infection) Interacts with human cytomegalovirus/HHV-5 protein UL69.

1 Publication

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Hide details

GO - Molecular functioni

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...BioGRIDi		113649, 253 interactors

CORUM comprehensive resource of mammalian protein complexes

More...CORUMi		Q13838

Protein interaction database and analysis system

More...IntActi		Q13838, 77 interactors

Molecular INTeraction database

More...MINTi		Q13838

STRING: functional protein association networks

More...STRINGi		9606.ENSP00000379475

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...RNActi		Q13838, protein

<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

Secondary structure

1428
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		Q13838

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		Q13838

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini76 – 249Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST174
Domaini261 – 422Helicase C-terminalPROSITE-ProRule annotationAdd BLAST162

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 31DisorderedSequence analysisAdd BLAST31

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi45 – 73Q motifAdd BLAST29
Motifi196 – 199DECD box4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi1 – 22Acidic residuesSequence analysisAdd BLAST22

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

The helicase C-terminal domain mediates interaction with ALYREF/THOC4.1 Publication

<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

Belongs to the DEAD box helicase family. DECD subfamily.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG0329, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT00940000160110

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_003041_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q13838

Identification of Orthologs from Complete Genome Data

More...OMAi		VCADEAP

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q13838

TreeFam database of animal gene trees

More...TreeFami		TF300442

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR011545, DEAD/DEAH_box_helicase_dom
IPR014001, Helicase_ATP-bd
IPR001650, Helicase_C
IPR027417, P-loop_NTPase
IPR014014, RNA_helicase_DEAD_Q_motif

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00270, DEAD, 1 hit
PF00271, Helicase_C, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00487, DEXDc, 1 hit
SM00490, HELICc, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF52540, SSF52540, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51192, HELICASE_ATP_BIND_1, 1 hit
PS51194, HELICASE_CTER, 1 hit
PS51195, Q_MOTIF, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (2+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 28 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q13838-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MAENDVDNEL LDYEDDEVET AAGGDGAEAP AKKDVKGSYV SIHSSGFRDF 
        60         70         80         90        100
LLKPELLRAI VDCGFEHPSE VQHECIPQAI LGMDVLCQAK SGMGKTAVFV 
       110        120        130        140        150
LATLQQLEPV TGQVSVLVMC HTRELAFQIS KEYERFSKYM PNVKVAVFFG 
       160        170        180        190        200
GLSIKKDEEV LKKNCPHIVV GTPGRILALA RNKSLNLKHI KHFILDECDK 
       210        220        230        240        250
MLEQLDMRRD VQEIFRMTPH EKQVMMFSAT LSKEIRPVCR KFMQDPMEIF 
       260        270        280        290        300
VDDETKLTLH GLQQYYVKLK DNEKNRKLFD LLDVLEFNQV VIFVKSVQRC 
       310        320        330        340        350
IALAQLLVEQ NFPAIAIHRG MPQEERLSRY QQFKDFQRRI LVATNLFGRG 
       360        370        380        390        400
MDIERVNIAF NYDMPEDSDT YLHRVARAGR FGTKGLAITF VSDENDAKIL 
       410        420 
NDVQDRFEVN ISELPDEIDI SSYIEQTR
Length:428
Mass (Da):48,991
Last modified:November 1, 1996 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i7A55167BF576FB6F
GO
Isoform 2 (identifier: Q13838-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     114-114: V → VYLGRVLGRGFWLGLV

Show »
Length:443
Mass (Da):50,679
Checksum:i5B25C9C18CA433A4
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 28 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F6S4E6F6S4E6_HUMAN
RNA helicase
DDX39B
231Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6TRA5F6TRA5_HUMAN
RNA helicase
DDX39B
238Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6WLT2F6WLT2_HUMAN
RNA helicase
DDX39B
289Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
Q5STU3Q5STU3_HUMAN
RNA helicase
DDX39B
425Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A0A0MT12A0A0A0MT12_HUMAN
RNA helicase
DDX39B
235Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6QYI9F6QYI9_HUMAN
RNA helicase
DDX39B
187Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6R6M7F6R6M7_HUMAN
RNA helicase
DDX39B
197Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6S2B7F6S2B7_HUMAN
RNA helicase
DDX39B
132Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6U6E2F6U6E2_HUMAN
RNA helicase
DDX39B
125Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F6SXL5F6SXL5_HUMAN
RNA helicase
DDX39B
136Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
There are more potential isoformsShow all

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti289Q → R in BAD96632 (Ref. 3) Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_026347114V → VYLGRVLGRGFWLGLV in isoform 2. Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
Z37166 mRNA Translation: CAA85523.1
BT009909 mRNA Translation: AAP88911.1
AK222912 mRNA Translation: BAD96632.1
AB088115 Genomic DNA Translation: BAC54953.1
AB103621 Genomic DNA Translation: BAF31287.1
AB202112 Genomic DNA Translation: BAE78637.1
BA000025 Genomic DNA Translation: BAB63306.1
AL662801 Genomic DNA No translation available.
AL662847 Genomic DNA No translation available.
BX001040 Genomic DNA No translation available.
BX248516 Genomic DNA No translation available.
BX927320 Genomic DNA No translation available.
CR753820 Genomic DNA No translation available.
CR753864 Genomic DNA No translation available.
CH471081 Genomic DNA Translation: EAX03404.1
BC000361 mRNA Translation: AAH00361.1
BC013006 mRNA Translation: AAH13006.1
AF029061 Genomic DNA Translation: AAB94615.1
AF029062 Genomic DNA Translation: AAC63046.1

The Consensus CDS (CCDS) project

More...CCDSi		CCDS4697.1 [Q13838-1]

Protein sequence database of the Protein Information Resource

More...PIRi		I37201

NCBI Reference Sequences

More...RefSeqi		NP_004631.1, NM_004640.6 [Q13838-1]
NP_542165.1, NM_080598.5 [Q13838-1]

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENST00000383508; ENSP00000373000; ENSG00000215425 [Q13838-1]
ENST00000396172; ENSP00000379475; ENSG00000198563 [Q13838-1]
ENST00000400295; ENSP00000383151; ENSG00000215425 [Q13838-1]
ENST00000400296; ENSP00000383152; ENSG00000215425 [Q13838-1]
ENST00000412106; ENSP00000393712; ENSG00000225073 [Q13838-1]
ENST00000412330; ENSP00000398775; ENSG00000225859 [Q13838-1]
ENST00000413678; ENSP00000391463; ENSG00000229496 [Q13838-1]
ENST00000414440; ENSP00000411853; ENSG00000229496 [Q13838-1]
ENST00000415689; ENSP00000390999; ENSG00000225073 [Q13838-1]
ENST00000416863; ENSP00000407419; ENSG00000229496 [Q13838-1]
ENST00000430784; ENSP00000399030; ENSG00000235439 [Q13838-1]
ENST00000431360; ENSP00000404695; ENSG00000235439 [Q13838-1]
ENST00000441425; ENSP00000388880; ENSG00000230624 [Q13838-1]
ENST00000445218; ENSP00000411136; ENSG00000225859 [Q13838-1]
ENST00000448296; ENSP00000405560; ENSG00000225859 [Q13838-1]
ENST00000453138; ENSP00000387994; ENSG00000230624 [Q13838-1]
ENST00000456476; ENSP00000400326; ENSG00000225073 [Q13838-1]
ENST00000456666; ENSP00000394160; ENSG00000230624 [Q13838-1]
ENST00000458640; ENSP00000416269; ENSG00000198563 [Q13838-1]

Database of genes from NCBI RefSeq genomes

More...GeneIDi		7919

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		hsa:7919

UCSC genome browser

More...UCSCi		uc003ntt.4, human [Q13838-1]

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<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

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z37166 mRNA Translation: CAA85523.1
BT009909 mRNA Translation: AAP88911.1
AK222912 mRNA Translation: BAD96632.1
AB088115 Genomic DNA Translation: BAC54953.1
AB103621 Genomic DNA Translation: BAF31287.1
AB202112 Genomic DNA Translation: BAE78637.1
BA000025 Genomic DNA Translation: BAB63306.1
AL662801 Genomic DNA No translation available.
AL662847 Genomic DNA No translation available.
BX001040 Genomic DNA No translation available.
BX248516 Genomic DNA No translation available.
BX927320 Genomic DNA No translation available.
CR753820 Genomic DNA No translation available.
CR753864 Genomic DNA No translation available.
CH471081 Genomic DNA Translation: EAX03404.1
BC000361 mRNA Translation: AAH00361.1
BC013006 mRNA Translation: AAH13006.1
AF029061 Genomic DNA Translation: AAB94615.1
AF029062 Genomic DNA Translation: AAC63046.1
CCDSiCCDS4697.1 [Q13838-1]
PIRiI37201
RefSeqiNP_004631.1, NM_004640.6 [Q13838-1]
NP_542165.1, NM_080598.5 [Q13838-1]

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1T5IX-ray1.90A259-428[»]
1T6NX-ray1.94A/B34-251[»]
1XTIX-ray1.95A46-428[»]
1XTJX-ray2.70A44-423[»]
1XTKX-ray2.40A45-428[»]
7APKelectron microscopy3.30H/P/h/p1-428[»]
SMRiQ13838
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi113649, 253 interactors
CORUMiQ13838
IntActiQ13838, 77 interactors
MINTiQ13838
STRINGi9606.ENSP00000379475

Chemistry databases

DrugBankiDB11638, Artenimol

Protein family/group databases

TCDBi3.A.18.1.1, the nuclear mrna exporter (mrna-e) family

PTM databases

iPTMnetiQ13838
MetOSiteiQ13838
PhosphoSitePlusiQ13838
SwissPalmiQ13838

Genetic variation databases

BioMutaiDDX39B
DMDMi2500529

Proteomic databases

EPDiQ13838
jPOSTiQ13838
MassIVEiQ13838
MaxQBiQ13838
PaxDbiQ13838
PeptideAtlasiQ13838
PRIDEiQ13838
ProteomicsDBi59701 [Q13838-1]
59702 [Q13838-2]

Protocols and materials databases

Antibodypedia a portal for validated antibodies

More...Antibodypediai		27068, 337 antibodies

The DNASU plasmid repository

More...DNASUi		7919

Genome annotation databases

EnsembliENST00000383508; ENSP00000373000; ENSG00000215425 [Q13838-1]
ENST00000396172; ENSP00000379475; ENSG00000198563 [Q13838-1]
ENST00000400295; ENSP00000383151; ENSG00000215425 [Q13838-1]
ENST00000400296; ENSP00000383152; ENSG00000215425 [Q13838-1]
ENST00000412106; ENSP00000393712; ENSG00000225073 [Q13838-1]
ENST00000412330; ENSP00000398775; ENSG00000225859 [Q13838-1]
ENST00000413678; ENSP00000391463; ENSG00000229496 [Q13838-1]
ENST00000414440; ENSP00000411853; ENSG00000229496 [Q13838-1]
ENST00000415689; ENSP00000390999; ENSG00000225073 [Q13838-1]
ENST00000416863; ENSP00000407419; ENSG00000229496 [Q13838-1]
ENST00000430784; ENSP00000399030; ENSG00000235439 [Q13838-1]
ENST00000431360; ENSP00000404695; ENSG00000235439 [Q13838-1]
ENST00000441425; ENSP00000388880; ENSG00000230624 [Q13838-1]
ENST00000445218; ENSP00000411136; ENSG00000225859 [Q13838-1]
ENST00000448296; ENSP00000405560; ENSG00000225859 [Q13838-1]
ENST00000453138; ENSP00000387994; ENSG00000230624 [Q13838-1]
ENST00000456476; ENSP00000400326; ENSG00000225073 [Q13838-1]
ENST00000456666; ENSP00000394160; ENSG00000230624 [Q13838-1]
ENST00000458640; ENSP00000416269; ENSG00000198563 [Q13838-1]
GeneIDi7919
KEGGihsa:7919
UCSCiuc003ntt.4, human [Q13838-1]

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		7919
DisGeNETi7919

GeneCards: human genes, protein and diseases

More...GeneCardsi		DDX39B
HGNCiHGNC:13917, DDX39B
HPAiENSG00000198563, Low tissue specificity
MIMi142560, gene
neXtProtiNX_Q13838
OpenTargetsiENSG00000198563
PharmGKBiPA25262
VEuPathDBiHostDB:ENSG00000198563.13

GenAtlas: human gene database

More...GenAtlasi		Search...

Phylogenomic databases

eggNOGiKOG0329, Eukaryota
GeneTreeiENSGT00940000160110
HOGENOMiCLU_003041_1_0_1
InParanoidiQ13838
OMAiVCADEAP
PhylomeDBiQ13838
TreeFamiTF300442

Enzyme and pathway databases

PathwayCommonsiQ13838
ReactomeiR-HSA-159236, Transport of Mature mRNA derived from an Intron-Containing Transcript
R-HSA-72187, mRNA 3'-end processing
R-HSA-73856, RNA Polymerase II Transcription Termination
SABIO-RKiQ13838

Miscellaneous databases

BioGRID ORCS database of CRISPR phenotype screens

More...BioGRID-ORCSi		7919, 427 hits in 1001 CRISPR screens
EvolutionaryTraceiQ13838

The Gene Wiki collection of pages on human genes and proteins

More...GeneWikii		BAT1

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

More...GenomeRNAii		7919
PharosiQ13838, Tbio

Protein Ontology

More...PROi		PR:Q13838
RNActiQ13838, protein

The Stanford Online Universal Resource for Clones and ESTs

More...SOURCEi		Search...

Gene expression databases

BgeeiENSG00000198563, Expressed in left lobe of thyroid gland and 116 other tissues
ExpressionAtlasiQ13838, baseline and differential
GenevisibleiQ13838, HS

Family and domain databases

InterProiView protein in InterPro
IPR011545, DEAD/DEAH_box_helicase_dom
IPR014001, Helicase_ATP-bd
IPR001650, Helicase_C
IPR027417, P-loop_NTPase
IPR014014, RNA_helicase_DEAD_Q_motif
PfamiView protein in Pfam
PF00270, DEAD, 1 hit
PF00271, Helicase_C, 1 hit
SMARTiView protein in SMART
SM00487, DEXDc, 1 hit
SM00490, HELICc, 1 hit
SUPFAMiSSF52540, SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS51192, HELICASE_ATP_BIND_1, 1 hit
PS51194, HELICASE_CTER, 1 hit
PS51195, Q_MOTIF, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<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 subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiDX39B_HUMAN
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q13838
Secondary accession number(s): B0S8C0
, O43496, Q0EFA1, Q2L6F9, Q53GL9, Q5RJ64, Q5RJ66, Q5ST94, Q5STB4, Q5STB5, Q5STB7, Q5STB8, Q5STU4, Q5STU5, Q5STU6, Q5STU8, Q71V76
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: June 2, 2021
This is version 212 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>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.

<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

3D-structure, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families
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