UniProtKB - Q68FK8 (DHX9_XENLA)
Protein
ATP-dependent RNA helicase A protein
Gene
dhx9
Organism
Xenopus laevis (African clawed frog)
Status
Functioni
Multifunctional ATP-dependent nucleic acid helicase that unwinds DNA and RNA in a 3' to 5' direction and that plays important roles in many processes, such as DNA replication, transcriptional activation, post-transcriptional RNA regulation, mRNA translation and RNA-mediated gene silencing. Requires a 3'-single-stranded tail as entry site for acid nuclei unwinding activities as well as the binding and hydrolyzing of any of the four ribo- or deoxyribo-nucleotide triphosphates (NTPs). Binds to DNA, RNA and small interfering siRNA. Plays a role in DNA replication at origins of replication and cell cycle progression. Plays a role as a transcriptional coactivator acting as a bridging factor between polymerase II holoenzyme and transcription factors or cofactors. Plays several roles in post-transcriptional regulation of gene expression. Promotes pre-mRNA alternative splicing activities of a subset of genes. As component of a large PER complex, is involved in the negative regulation of 3' transcriptional termination of circadian target genes. Component of the coding region determinant (CRD)-mediated complex that promotes cytoplasmic MYC mRNA stability. Plays a role in mRNA translation. Plays also a role in the RNA-induced silencing complex (RISC) loading complex (RLC) assembly, and hence functions in the RISC-mediated gene silencing process. Mediates the attachment of heterogeneous nuclear ribonucleoproteins (hnRNPs) to actin filaments in the nucleus.By similarity
Catalytic activityi
- EC:3.6.4.13By similarity
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 420 | ManganeseBy similarity | 1 | |
Metal bindingi | 514 | ManganeseBy similarity | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 413 – 421 | ATPPROSITE-ProRule annotationBy similarity | 9 |
GO - Molecular functioni
- 3'-5' DNA/RNA helicase activity Source: UniProtKB
- 3'-5' DNA helicase activity Source: UniProtKB
- 3'-5' RNA helicase activity Source: UniProtKB
- ATPase activity Source: UniProtKB
- ATP binding Source: UniProtKB-KW
- chromatin DNA binding Source: UniProtKB
- DNA binding Source: UniProtKB
- DNA helicase activity Source: UniProtKB
- DNA replication origin binding Source: UniProtKB
- double-stranded DNA binding Source: UniProtKB
- double-stranded RNA binding Source: UniProtKB
- importin-alpha family protein binding Source: UniProtKB
- metal ion binding Source: UniProtKB-KW
- mRNA binding Source: UniProtKB
- nucleoside-triphosphatase activity Source: UniProtKB
- nucleoside-triphosphate diphosphatase activity Source: UniProtKB
- polysome binding Source: UniProtKB
- promoter-specific chromatin binding Source: UniProtKB
- RISC complex binding Source: UniProtKB
- RNA binding Source: UniProtKB
- RNA helicase activity Source: UniProtKB
- RNA polymerase binding Source: UniProtKB
- RNA polymerase II cis-regulatory region sequence-specific DNA binding Source: UniProtKB
- RNA stem-loop binding Source: UniProtKB
- sequence-specific mRNA binding Source: UniProtKB
- single-stranded 3'-5' DNA helicase activity Source: UniProtKB
- single-stranded DNA binding Source: UniProtKB
- single-stranded RNA binding Source: UniProtKB
- transcription coactivator activity Source: UniProtKB
- triplex DNA binding Source: UniProtKB
GO - Biological processi
- alternative mRNA splicing, via spliceosome Source: UniProtKB
- cellular response to tumor necrosis factor Source: UniProtKB
- DNA duplex unwinding Source: UniProtKB
- DNA replication Source: UniProtKB-KW
- DNA-templated transcription, termination Source: UniProtKB-KW
- G-quadruplex DNA unwinding Source: UniProtKB
- mRNA transport Source: UniProtKB-KW
- positive regulation of cytoplasmic translation Source: UniProtKB
- positive regulation of DNA repair Source: UniProtKB
- positive regulation of DNA replication Source: UniProtKB
- positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity Source: UniProtKB
- positive regulation of fibroblast proliferation Source: UniProtKB
- positive regulation of gene silencing by miRNA Source: UniProtKB
- positive regulation of NF-kappaB transcription factor activity Source: UniProtKB
- positive regulation of polysome binding Source: UniProtKB
- positive regulation of RNA export from nucleus Source: UniProtKB
- positive regulation of transcription by RNA polymerase II Source: UniProtKB
- regulation of cytoplasmic translation Source: UniProtKB
- regulation of mRNA processing Source: UniProtKB
- RNA secondary structure unwinding Source: UniProtKB
- small RNA loading onto RISC Source: UniProtKB
- targeting of mRNA for destruction involved in RNA interference Source: UniProtKB
Keywordsi
Molecular function | Activator, DNA-binding, Helicase, Hydrolase, RNA-binding |
Biological process | DNA replication, mRNA processing, mRNA splicing, mRNA transport, RNA-mediated gene silencing, Transcription, Transcription regulation, Transcription termination, Translation regulation, Transport |
Ligand | ATP-binding, Manganese, Metal-binding, Nucleotide-binding |
Names & Taxonomyi
Protein namesi | Recommended name: ATP-dependent RNA helicase A proteinBy similarity (EC:3.6.4.13By similarity)Alternative name(s): DEAH box protein 9By similarity Nuclear DNA helicase IIBy similarity Short name: NDH IIBy similarity |
Gene namesi | Name:dhx9By similarity |
Organismi | Xenopus laevis (African clawed frog) |
Taxonomic identifieri | 8355 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Amphibia › Batrachia › Anura › Pipoidea › Pipidae › Xenopodinae › Xenopus › Xenopus |
Organism-specific databases
Xenbasei | XB-GENE-967780, dhx9.L |
Subcellular locationi
Nucleus
- Nucleus By similarity
- nucleoplasm By similarity
- nucleolus By similarity
Cytoskeleton
- centrosome By similarity
Other locations
- Cytoplasm By similarity
Note: Nucleoplasmic shuttling protein. Its nuclear import involves the nucleocytoplasmic transport receptor Importin alpha/Importin beta receptor pathway in a Ran-dependent manner. In interphase, localizes in nuclear stress granules and at perichromatin fibrils and in cytoplasmic ribonucleoprotein granules. Excluded from the mitotic nucleus as early as prophase and re-entered the nucleus at telophase. Localized in cytoplasmic mRNP granules containing untranslated mRNAs.By similarity
Cytoskeleton
- actin cytoskeleton Source: UniProtKB
- microtubule organizing center Source: UniProtKB-SubCell
Nucleus
- nuclear body Source: UniProtKB
- nuclear stress granule Source: UniProtKB
- nucleolus Source: UniProtKB-SubCell
- nucleoplasm Source: UniProtKB
- nucleus Source: UniProtKB
- perichromatin fibrils Source: UniProtKB
Other locations
- CRD-mediated mRNA stability complex Source: UniProtKB
- cytoplasm Source: UniProtKB
- cytoplasmic ribonucleoprotein granule Source: UniProtKB
- polysomal ribosome Source: UniProtKB
- polysome Source: UniProtKB
- ribonucleoprotein complex Source: UniProtKB
- RISC complex Source: UniProtKB
- RISC-loading complex Source: UniProtKB
Keywords - Cellular componenti
Cytoplasm, Cytoskeleton, NucleusPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000055160 | 1 – 1262 | ATP-dependent RNA helicase A proteinAdd BLAST | 1262 |
Interactioni
Subunit structurei
Component of the coding region determinant (CRD)-mediated complex. Identified in mRNP granule complexes containing untranslated mRNAs. Associates with the RISC complex. Associates with the SMN complex. Associates with polysomes.
By similarityGO - Molecular functioni
- importin-alpha family protein binding Source: UniProtKB
- RNA polymerase binding Source: UniProtKB
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 3 – 71 | DRBM 1PROSITE-ProRule annotationBy similarityAdd BLAST | 69 | |
Domaini | 183 – 255 | DRBM 2PROSITE-ProRule annotationBy similarityAdd BLAST | 73 | |
Domaini | 400 – 566 | Helicase ATP-bindingPROSITE-ProRule annotationBy similarityAdd BLAST | 167 | |
Domaini | 638 – 811 | Helicase C-terminalPROSITE-ProRule annotationAdd BLAST | 174 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 5 – 9 | siRNA-bindingBy similarity | 5 | |
Regioni | 53 – 55 | siRNA-bindingBy similarity | 3 | |
Regioni | 185 – 189 | siRNA-bindingBy similarity | 5 | |
Regioni | 237 – 239 | siRNA-bindingBy similarity | 3 | |
Regioni | 334 – 382 | MTADBy similarityAdd BLAST | 49 | |
Regioni | 400 – 811 | Core helicaseBy similarityAdd BLAST | 412 | |
Regioni | 833 – 921 | HA2By similarityAdd BLAST | 89 | |
Regioni | 960 – 1076 | OB-foldBy similarityAdd BLAST | 117 | |
Regioni | 1152 – 1262 | RGGBy similarityAdd BLAST | 111 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 513 – 516 | DEIH box | 4 | |
Motifi | 588 – 597 | Nuclear localization signal (NLS1)Sequence analysis | 10 | |
Motifi | 1158 – 1170 | Nuclear localization signal (NLS2)By similarityAdd BLAST | 13 |
Domaini
DRBM domains cooperate for the binding to nucleic acid but not for unwinding helicase activity. The helicase-associated domain-2 (HA2) region is essential for the duplex RNA unwinding helicase activity. The minimal transactivation region (MTAD) mediates interaction with the RNA polymerase II holoenzyme and stimulates transcriptional activation. The oligonucleotide- or oligosaccharide-binding (OB-fold) and the repeated arginine and glycine-glycine (RGG) regions are dispensable for both RNA-binding and unwinding helicase activities. The RGG region contains both nuclear localization signal (NLS) and nuclear export signal (NES) and is necessary and sufficient for nucleocytoplasmic shuttling in a RNA-independent manner.By similarity
Sequence similaritiesi
Keywords - Domaini
RepeatPhylogenomic databases
OrthoDBi | 278674at2759 |
Family and domain databases
CDDi | cd00048, DSRM, 2 hits |
InterProi | View protein in InterPro IPR011545, DEAD/DEAH_box_helicase_dom IPR002464, DNA/RNA_helicase_DEAH_CS IPR014720, dsRBD_dom IPR011709, DUF1605 IPR007502, Helicase-assoc_dom IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR027417, P-loop_NTPase |
Pfami | View protein in Pfam PF00270, DEAD, 1 hit PF00035, dsrm, 2 hits PF04408, HA2, 1 hit PF00271, Helicase_C, 1 hit PF07717, OB_NTP_bind, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit SM00358, DSRM, 2 hits SM00847, HA2, 1 hit SM00490, HELICc, 1 hit |
SUPFAMi | SSF52540, SSF52540, 1 hit |
PROSITEi | View protein in PROSITE PS00690, DEAH_ATP_HELICASE, 1 hit PS50137, DS_RBD, 2 hits PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit |
i Sequence
Sequence statusi: Complete.
Q68FK8-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MADIKNFLYA WCGKKKLTPN YEIRAAGNKN RQKFMCEVRI DGFNYIGMGN
60 70 80 90 100
STNKKDAQTN SARDFVNYLV RVGEMRSDEV PSLGAELGDS IDGASLKSEG
110 120 130 140 150
FSGPTGGPLP PHLSLQAESS GAAPMRSNTG FNPPAYGGGA QWERGANLKD
160 170 180 190 200
YYAKREEQEA QATLESEEVD LNAGLHGNWT LENAKARLNQ FFQKEKTQGE
210 220 230 240 250
YKYSQVGPDH NRSFIAEMTL YVKQLGRKII AREHGSNKKL AAQSCALSIV
260 270 280 290 300
RQLYHLSVIE PYSGLTKKKE GESVEPYQVN LNPDIVKQLQ STIQELGIEL
310 320 330 340 350
PYPPEDPSQP VSLNLGKLVH FEPSQKQSHS GVVPWSPPQE NWNPWTSSNI
360 370 380 390 400
DEGPLAFATQ EQISLELKNE HMYHIQDPNI KQVLIDRESL PVKKFEEEIM
410 420 430 440 450
HAVHNSPVVI IRGATGCGKT TQVPQYILDE YIRNDRAAQC NIVVTQPRRI
460 470 480 490 500
SAVSVAERVA FERGEEIGKS CGYSVRFESV LPRPHASMLF CTVGVLLRKL
510 520 530 540 550
ESGIRGISHV IVDEIHERDI NTDFLLVVLR DVIQAFPEIR VILMSATIDT
560 570 580 590 600
SMFCEYFFNC PIIEVFGRTF PVQEYYLEDC IQMTQFIPPP RDKKKKDKDE
610 620 630 640 650
EGGDDEETNC NLVCGDDYGP ETRRSMSQLS EKETPLELIE ALLKYIETLN
660 670 680 690 700
VPGAVLVFLP GWNLIYAMQK HLEMNPHFGS HSYCILPLHS QIPRDEQRKV
710 720 730 740 750
FDPVPDGIIK VILSTNIAET SITINDVVYV IDSCKQKVKL FTSHNNMTNY
760 770 780 790 800
ATVWASKTNL EQRKGRAGRV RPGFCFHLCS KARFDKLETH LTPEIFRTPL
810 820 830 840 850
HEVALSIKLL RLGGIGHFLS KAIEPPPLDA VIEAEHTLRE LDALDSNDEL
860 870 880 890 900
TPLGRILAKL PIEPRLGKMM IIGCIFYVGD ALCTISAATC FPEPFISEGR
910 920 930 940 950
RLGYVHRNFA GNRFSDHVAL LSVFQAWDDA RMGGEDAETR FCEHKRLNMA
960 970 980 990 1000
TLRMTWEAKV QLKDILVNAG FPEECLMNQV FNNTGPDNNL DVVISLLAFG
1010 1020 1030 1040 1050
VYPNVCYHKE KRKILTTEGR NALIHKSSVN CPFSNQDLKY PSPFFVFSEK
1060 1070 1080 1090 1100
IRTRAISAKG MTMVSPLQLL LFASKKVMSD GEFIHLDDWI KLSMAHEESA
1110 1120 1130 1140 1150
CITALRAALE ALVVEVTKEP EILSQLDPVN EKMLNMIRVI SKPSTAGISL
1160 1170 1180 1190 1200
VMGNSRFGDG PRPPKMARFD SGFQGNRGRG YHGGYNSGGG FRGAGNRGFR
1210 1220 1230 1240 1250
GSRGGSGPRG GYQGGGFRGN YRGGNQGGGF RGGYQSQGGY QSQGGGGYGG
1260
NFQGRGGFRG GF
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BC079701 mRNA Translation: AAH79701.1 |
RefSeqi | NP_001087383.1, NM_001093914.1 |
Genome annotation databases
GeneIDi | 447207 |
KEGGi | xla:447207 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BC079701 mRNA Translation: AAH79701.1 |
RefSeqi | NP_001087383.1, NM_001093914.1 |
3D structure databases
SMRi | Q68FK8 |
ModBasei | Search... |
Genome annotation databases
GeneIDi | 447207 |
KEGGi | xla:447207 |
Organism-specific databases
CTDi | 447207 |
Xenbasei | XB-GENE-967780, dhx9.L |
Phylogenomic databases
OrthoDBi | 278674at2759 |
Family and domain databases
CDDi | cd00048, DSRM, 2 hits |
InterProi | View protein in InterPro IPR011545, DEAD/DEAH_box_helicase_dom IPR002464, DNA/RNA_helicase_DEAH_CS IPR014720, dsRBD_dom IPR011709, DUF1605 IPR007502, Helicase-assoc_dom IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR027417, P-loop_NTPase |
Pfami | View protein in Pfam PF00270, DEAD, 1 hit PF00035, dsrm, 2 hits PF04408, HA2, 1 hit PF00271, Helicase_C, 1 hit PF07717, OB_NTP_bind, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit SM00358, DSRM, 2 hits SM00847, HA2, 1 hit SM00490, HELICc, 1 hit |
SUPFAMi | SSF52540, SSF52540, 1 hit |
PROSITEi | View protein in PROSITE PS00690, DEAH_ATP_HELICASE, 1 hit PS50137, DS_RBD, 2 hits PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | DHX9_XENLA | |
Accessioni | Q68FK8Primary (citable) accession number: Q68FK8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 19, 2005 |
Last sequence update: | October 11, 2004 | |
Last modified: | December 2, 2020 | |
This is version 88 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |