UniProtKB - Q13838 (DX39B_HUMAN)
Spliceosome RNA helicase DDX39B
DDX39B
Functioni
Catalytic activityi
- EC:3.6.4.131 Publication
Kineticsi
- KM=3.3 µM for ATP1 Publication
- Vmax=0.126 µM/min/mg enzyme with ATP as substrate1 Publication
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 89 – 96 | ATP | 8 |
GO - Molecular functioni
- ATPase activity Source: Reactome
- ATP binding Source: UniProtKB-KW
- ATP-dependent protein binding Source: BHF-UCL
- identical protein binding Source: IntAct
- protein-containing complex binding Source: Ensembl
- RNA binding Source: UniProtKB
- RNA-dependent ATPase activity Source: UniProtKB
- RNA helicase activity Source: UniProtKB
- U4 snRNA binding Source: BHF-UCL
- U6 snRNA binding Source: BHF-UCL
GO - Biological processi
- liver development Source: Ensembl
- mRNA 3'-end processing Source: Reactome
- mRNA export from nucleus Source: UniProtKB
- mRNA splicing, via spliceosome Source: UniProtKB
- negative regulation of DNA damage checkpoint Source: UniProtKB
- positive regulation of cell growth involved in cardiac muscle cell development Source: Ensembl
- positive regulation of DNA biosynthetic process Source: Ensembl
- positive regulation of DNA-templated transcription, elongation Source: UniProtKB
- positive regulation of translation Source: Ensembl
- positive regulation of vascular associated smooth muscle cell proliferation Source: Ensembl
- RNA export from nucleus Source: Reactome
- RNA secondary structure unwinding Source: BHF-UCL
- RNA splicing Source: BHF-UCL
- spliceosomal complex assembly Source: BHF-UCL
- viral mRNA export from host cell nucleus Source: UniProtKB
Keywordsi
Molecular function | Helicase, Hydrolase, RNA-binding |
Biological process | mRNA processing, mRNA splicing, mRNA transport, Transport |
Ligand | ATP-binding, Nucleotide-binding |
Enzyme and pathway databases
PathwayCommonsi | Q13838 |
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-RKi | Q13838 |
Protein family/group databases
TCDBi | 3.A.18.1.1, the nuclear mrna exporter (mrna-e) family |
Names & Taxonomyi
Protein namesi | Recommended name: Spliceosome RNA helicase DDX39B (EC:3.6.4.13)Alternative name(s): 56 kDa U2AF65-associated protein ATP-dependent RNA helicase p47 DEAD box protein UAP56 HLA-B-associated transcript 1 protein |
Gene namesi | Name:DDX39B Synonyms:BAT1, UAP56 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
EuPathDBi | HostDB:ENSG00000198563.13 |
HGNCi | HGNC:13917, DDX39B |
MIMi | 142560, gene |
neXtProti | NX_Q13838 |
Subcellular locationi
Nucleus
Other locations
Note: Can translocate to the cytoplasm in the presence of MX1. TREX complex assembly seems to occur in regions surrounding nuclear speckles known as perispeckles.
Nucleus
- nuclear matrix Source: Ensembl
- nuclear speck Source: HPA
- nucleoplasm Source: Reactome
- nucleus Source: UniProtKB
- spliceosomal complex Source: BHF-UCL
- transcription export complex Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB-SubCell
Keywords - Cellular componenti
Cytoplasm, Nucleus, SpliceosomePathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 94 – 96 | GKT → AAA: Loss of ATPase and helicase activity. 1 Publication | 3 | |
Mutagenesisi | 95 | K → A: Loss of ATPase and helicase activity. 2 Publications | 1 | |
Mutagenesisi | 197 | E → A: Loss of ATPase and helicase activity. 1 Publication | 1 | |
Mutagenesisi | 198 | C → A: No effect on ATPase activity. 1 Publication | 1 | |
Mutagenesisi | 199 | D → A: Increased ATPase activity and loss of helicase activity. 1 Publication | 1 | |
Mutagenesisi | 228 – 230 | SAT → AAA: Decreased ATPase activity and loss of helicase activity. 1 Publication | 3 |
Organism-specific databases
DisGeNETi | 7919 |
OpenTargetsi | ENSG00000198563 |
PharmGKBi | PA25262 |
Miscellaneous databases
Pharosi | Q13838, Tbio |
Chemistry databases
DrugBanki | DB11638, Artenimol |
Polymorphism and mutation databases
BioMutai | DDX39B |
DMDMi | 2500529 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | RemovedCombined sources | |||
ChainiPRO_0000055071 | 2 – 428 | Spliceosome RNA helicase DDX39BAdd BLAST | 427 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 2 | N-acetylalanineCombined sources | 1 | |
Modified residuei | 36 | N6-acetyllysine; alternateCombined sources | 1 | |
Cross-linki | 36 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateCombined sources | ||
Modified residuei | 38 | PhosphoserineCombined sources | 1 | |
Modified residuei | 41 | PhosphoserineCombined sources | 1 | |
Modified residuei | 172 | PhosphothreonineCombined sources | 1 |
Keywords - PTMi
Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
EPDi | Q13838 |
jPOSTi | Q13838 |
MassIVEi | Q13838 |
MaxQBi | Q13838 |
PaxDbi | Q13838 |
PeptideAtlasi | Q13838 |
PRIDEi | Q13838 |
ProteomicsDBi | 59701 [Q13838-1] 59702 [Q13838-2] |
PTM databases
iPTMneti | Q13838 |
MetOSitei | Q13838 |
PhosphoSitePlusi | Q13838 |
SwissPalmi | Q13838 |
Expressioni
Gene expression databases
Bgeei | ENSG00000198563, Expressed in left lobe of thyroid gland and 115 other tissues |
ExpressionAtlasi | Q13838, baseline and differential |
Genevisiblei | Q13838, HS |
Organism-specific databases
HPAi | ENSG00000198563, Low tissue specificity |
Interactioni
Subunit structurei
Homodimer, and heterodimer with DDX39A.
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.
Component of the spliceosome.
Interacts directly with U2AF2.
Interacts with RBM8A, RNPS1 and SRRM1, FYTTD1/UIF, THOC1, MX1 and POLDIP3.
Interacts with human cytomegalovirus/HHV-5 protein UL69.
Interacts with LUZP4.
16 PublicationsBinary interactionsi
Hide detailsQ13838
GO - Molecular functioni
- ATP-dependent protein binding Source: BHF-UCL
- identical protein binding Source: IntAct
Protein-protein interaction databases
BioGRIDi | 113649, 222 interactors |
CORUMi | Q13838 |
IntActi | Q13838, 69 interactors |
MINTi | Q13838 |
STRINGi | 9606.ENSP00000379475 |
Miscellaneous databases
RNActi | Q13838, protein |
Structurei
Secondary structure
3D structure databases
SMRi | Q13838 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q13838 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 76 – 249 | Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST | 174 | |
Domaini | 261 – 422 | Helicase C-terminalPROSITE-ProRule annotationAdd BLAST | 162 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 45 – 73 | Q motifAdd BLAST | 29 | |
Motifi | 196 – 199 | DECD box | 4 |
Domaini
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG0329, Eukaryota |
GeneTreei | ENSGT00940000160110 |
HOGENOMi | CLU_003041_1_0_1 |
InParanoidi | Q13838 |
OMAi | VCADEAP |
PhylomeDBi | Q13838 |
TreeFami | TF300442 |
Family and domain databases
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 |
Pfami | View protein in Pfam PF00270, DEAD, 1 hit PF00271, Helicase_C, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit SM00490, HELICc, 1 hit |
SUPFAMi | SSF52540, SSF52540, 1 hit |
PROSITEi | View protein in PROSITE PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit PS51195, Q_MOTIF, 1 hit |
s (2+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 2 described isoforms and 28 potential isoforms that are computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
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
Computationally mapped potential isoform sequencesi
There are 28 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketF6S4E6 | F6S4E6_HUMAN | RNA helicase | DDX39B | 231 | Annotation score: | ||
F6TRA5 | F6TRA5_HUMAN | RNA helicase | DDX39B | 238 | Annotation score: | ||
F6WLT2 | F6WLT2_HUMAN | RNA helicase | DDX39B | 289 | Annotation score: | ||
Q5STU3 | Q5STU3_HUMAN | RNA helicase | DDX39B | 425 | Annotation score: | ||
A0A0A0MT12 | A0A0A0MT12_HUMAN | RNA helicase | DDX39B | 235 | Annotation score: | ||
F6QYI9 | F6QYI9_HUMAN | RNA helicase | DDX39B | 187 | Annotation score: | ||
F6R6M7 | F6R6M7_HUMAN | RNA helicase | DDX39B | 197 | Annotation score: | ||
F6S2B7 | F6S2B7_HUMAN | RNA helicase | DDX39B | 132 | Annotation score: | ||
F6U6E2 | F6U6E2_HUMAN | RNA helicase | DDX39B | 125 | Annotation score: | ||
F6SXL5 | F6SXL5_HUMAN | RNA helicase | DDX39B | 136 | Annotation score: | ||
There are more potential isoformsShow all |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 289 | Q → R in BAD96632 (Ref. 3) Curated | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_026347 | 114 | V → VYLGRVLGRGFWLGLV in isoform 2. Curated | 1 |
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 |
CCDSi | CCDS4697.1 [Q13838-1] |
PIRi | I37201 |
RefSeqi | NP_004631.1, NM_004640.6 [Q13838-1] NP_542165.1, NM_080598.5 [Q13838-1] |
Genome annotation databases
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
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 |
CCDSi | CCDS4697.1 [Q13838-1] |
PIRi | I37201 |
RefSeqi | NP_004631.1, NM_004640.6 [Q13838-1] NP_542165.1, NM_080598.5 [Q13838-1] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1T5I | X-ray | 1.90 | A | 259-428 | [»] | |
1T6N | X-ray | 1.94 | A/B | 34-251 | [»] | |
1XTI | X-ray | 1.95 | A | 46-428 | [»] | |
1XTJ | X-ray | 2.70 | A | 44-423 | [»] | |
1XTK | X-ray | 2.40 | A | 45-428 | [»] | |
SMRi | Q13838 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 113649, 222 interactors |
CORUMi | Q13838 |
IntActi | Q13838, 69 interactors |
MINTi | Q13838 |
STRINGi | 9606.ENSP00000379475 |
Chemistry databases
DrugBanki | DB11638, Artenimol |
Protein family/group databases
TCDBi | 3.A.18.1.1, the nuclear mrna exporter (mrna-e) family |
PTM databases
iPTMneti | Q13838 |
MetOSitei | Q13838 |
PhosphoSitePlusi | Q13838 |
SwissPalmi | Q13838 |
Polymorphism and mutation databases
BioMutai | DDX39B |
DMDMi | 2500529 |
Proteomic databases
EPDi | Q13838 |
jPOSTi | Q13838 |
MassIVEi | Q13838 |
MaxQBi | Q13838 |
PaxDbi | Q13838 |
PeptideAtlasi | Q13838 |
PRIDEi | Q13838 |
ProteomicsDBi | 59701 [Q13838-1] 59702 [Q13838-2] |
Protocols and materials databases
Antibodypediai | 27068, 326 antibodies |
DNASUi | 7919 |
Genome annotation databases
Organism-specific databases
CTDi | 7919 |
DisGeNETi | 7919 |
EuPathDBi | HostDB:ENSG00000198563.13 |
GeneCardsi | DDX39B |
HGNCi | HGNC:13917, DDX39B |
HPAi | ENSG00000198563, Low tissue specificity |
MIMi | 142560, gene |
neXtProti | NX_Q13838 |
OpenTargetsi | ENSG00000198563 |
PharmGKBi | PA25262 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG0329, Eukaryota |
GeneTreei | ENSGT00940000160110 |
HOGENOMi | CLU_003041_1_0_1 |
InParanoidi | Q13838 |
OMAi | VCADEAP |
PhylomeDBi | Q13838 |
TreeFami | TF300442 |
Enzyme and pathway databases
PathwayCommonsi | Q13838 |
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-RKi | Q13838 |
Miscellaneous databases
BioGRID-ORCSi | 7919, 404 hits in 848 CRISPR screens |
EvolutionaryTracei | Q13838 |
GeneWikii | BAT1 |
GenomeRNAii | 7919 |
Pharosi | Q13838, Tbio |
PROi | PR:Q13838 |
RNActi | Q13838, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000198563, Expressed in left lobe of thyroid gland and 115 other tissues |
ExpressionAtlasi | Q13838, baseline and differential |
Genevisiblei | Q13838, HS |
Family and domain databases
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 |
Pfami | View protein in Pfam PF00270, DEAD, 1 hit PF00271, Helicase_C, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit SM00490, HELICc, 1 hit |
SUPFAMi | SSF52540, SSF52540, 1 hit |
PROSITEi | View protein in PROSITE PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit PS51195, Q_MOTIF, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | DX39B_HUMAN | |
Accessioni | Q13838Primary (citable) accession number: Q13838 Secondary accession number(s): B0S8C0 Q71V76 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 1, 1997 |
Last sequence update: | November 1, 1996 | |
Last modified: | December 2, 2020 | |
This is version 209 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
3D-structure, Reference proteomeDocuments
- Human chromosome 6
Human chromosome 6: entries, gene names and cross-references to MIM - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families