Tbio DDX39B Spliceosome RNA helicase DDX39B

Protein Summary

Description

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. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. 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. 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. This gene encodes a member of the DEAD box family of RNA-dependent ATPases that mediate ATP hydrolysis during pre-mRNA splicing. The encoded protein is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. This gene belongs to a cluster of genes localized in the vicinity of the genes encoding tumor necrosis factor alpha and tumor necrosis factor beta. These genes are all within the human major histocompatibility complex class III region. Mutations in this gene may be associated with rheumatoid arthritis. Alternative splicing results in multiple transcript variants. Related pseudogenes have been identified on both chromosomes 6 and 11. Read-through transcription also occurs between this gene and the upstream ATP6V1G2 (ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2) gene. [provided by RefSeq, Feb 2011]

Uniprot Accession IDs

• Q13838
• B0S8C0
• O43496
• Q0EFA1
• Q2L6F9
• Q53GL9
• Q5RJ64
• Q5RJ66
• Q5ST94
• Q5STB4
• Q5STB5
• Q5STB7
• Q5STB8
• Q5STU4
• Q5STU5
• Q5STU6
• Q5STU8
• Q71V76

Gene Name

• DDX39B

Ensembl ID

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

Symbol

• BAT1
• UAP56
• BAT1
• UAP56
• D6S81E

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
interacting protein	1
molecular function	1
small molecule perturbation	0.99
transcription factor binding site profile	0.88
phenotype	0.86

Protein Classes

No PANTHER Classes or DTO Classes found

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 101.25   (req: < 5)

Gene RIFs: 49   (req: <= 3)

Antibodies: 287   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 101.25   (req: >= 5)

Gene RIFs: 49   (req: > 3)

Antibodies: 287   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 25

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0