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Protein

ATP-dependent RNA helicase DDX1

Gene

Ddx1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. Possesses 5' single-stranded RNA overhang nuclease activity. Possesses ATPase activity on various RNA, but not DNA polynucleotides. May play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. Together with RELA, acts as a coactivator to enhance NF-kappa-B-mediated transcriptional activation. Acts as a positive transcriptional regulator of cyclin CCND2 expression. Binds to the cyclin CCND2 promoter region. Associates with chromatin at the NF-kappa-B promoter region via association with RELA. Binds to poly(A) RNA. May be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. Component of the tRNA-splicing ligase complex required to facilitate the enzymatic turnover of catalytic subunit RTCB: together with archease (ZBTB8OS), acts by facilitating the guanylylation of RTCB, a key intermediate step in tRNA ligation.1 Publication

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi46 – 53ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, DNA-binding, Exonuclease, Helicase, Hydrolase, Nuclease, RNA-binding
Biological processmRNA processing, Transcription, Transcription regulation, tRNA processing
LigandATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent RNA helicase DDX1 (EC:3.6.4.13)
Alternative name(s):
DEAD box protein 1
Gene namesi
Name:Ddx1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 12

Organism-specific databases

MGIiMGI:2144727. Ddx1.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000549871 – 740ATP-dependent RNA helicase DDX1Add BLAST740

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei239N6-acetyllysineBy similarity1
Modified residuei268N6-acetyllysineBy similarity1
Modified residuei281N6-acetyllysine; alternateBy similarity1
Cross-linki281Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei481PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ91VR5.
MaxQBiQ91VR5.
PaxDbiQ91VR5.
PeptideAtlasiQ91VR5.
PRIDEiQ91VR5.

2D gel databases

REPRODUCTION-2DPAGEiQ91VR5.

PTM databases

iPTMnetiQ91VR5.
PhosphoSitePlusiQ91VR5.
SwissPalmiQ91VR5.

Expressioni

Tissue specificityi

Testis-specific. Expressed in the germ line stem cells, spermatogonia and spermatocytes of the testis. Also expressed in the seminoma and nonseminoma types of testicular germ cell tumors (TGCTs) (at protein level).1 Publication

Developmental stagei

Expressed in the testis from 11.5 to 19.5 dpc.1 Publication

Gene expression databases

BgeeiENSMUSG00000037149.
CleanExiMM_DDX1.
GenevisibleiQ91VR5. MM.

Interactioni

Subunit structurei

Interacts with MBNL1. Interacts with CSTF2. Interacts with HNRNPK. Interacts with ATM. Interacts with RELA (via C-terminal). Component of the tRNA-splicing ligase complex (By similarity). Interacts with PHF5A (via C-terminus).By similarity1 Publication

Protein-protein interaction databases

BioGridi222684. 7 interactors.
IntActiQ91VR5. 4 interactors.
STRINGi10090.ENSMUSP00000065987.

Structurei

3D structure databases

ProteinModelPortaliQ91VR5.
SMRiQ91VR5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 428Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST427
Domaini70 – 247B30.2/SPRYPROSITE-ProRule annotationAdd BLAST178
Domaini493 – 681Helicase C-terminalPROSITE-ProRule annotationAdd BLAST189

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 525Necessary for interaction with RELABy similarityAdd BLAST525
Regioni1 – 295Necessary for interaction with HNRNPKBy similarityAdd BLAST295
Regioni525 – 740Necessary for interaction with HNRNPKBy similarityAdd BLAST216

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi370 – 373DEAD box4

Domaini

The helicase domain is involved in the stimulation of RELA transcriptional activity.By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG0349. Eukaryota.
COG0513. LUCA.
GeneTreeiENSGT00890000139383.
HOGENOMiHOG000251633.
HOVERGENiHBG005462.
InParanoidiQ91VR5.
KOiK13177.
OMAiTLNNVKQ.
OrthoDBiEOG091G03WJ.
PhylomeDBiQ91VR5.
TreeFamiTF106114.

Family and domain databases

InterProiView protein in InterPro
IPR001870. B30.2/SPRY.
IPR013320. ConA-like_dom.
IPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR014014. RNA_helicase_DEAD_Q_motif.
IPR003877. SPRY_dom.
PfamiView protein in Pfam
PF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00622. SPRY. 1 hit.
SMARTiView protein in SMART
SM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
SM00449. SPRY. 1 hit.
SUPFAMiSSF49899. SSF49899. 1 hit.
SSF52540. SSF52540. 3 hits.
PROSITEiView protein in PROSITE
PS50188. B302_SPRY. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 2 hits.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.

Sequencei

Sequence statusi: Complete.

Q91VR5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAAFSEMGVM PEIAQAVEEM DWLLPTDIQA ESIPLILGGG DVLMAAETGS
60 70 80 90 100
GKTGAFSIPV IQIVYETLKD QQEGKKGKTT IKTGASVLNK WQMNPYDRGS
110 120 130 140 150
AFAIGSDGLC CQSREVKEWH GCRGTRGLLK GKHYYEVSCH DQGLCRVGWS
160 170 180 190 200
TMQASLDLGT DKFGFGFGGT GKKSHNKQFD NYGEEFTMHD TIGCYLDIDK
210 220 230 240 250
GHVKFSKNGK DLGLAFEIPA HIKNQALFPA CVLKNAELKF NFGEEEFKFP
260 270 280 290 300
PKDGFVALSK APDNYIVKSQ HTGNAQVSQT KFLPNAPKAL IVEPSRELAE
310 320 330 340 350
QTLNNVKQFK KYIDNPKLRE LLIIGGVAAR DQLSVLDNGV DIVVGTPGRL
360 370 380 390 400
DDLVSTGKLN LSQVRFLVLD EADGLLSQGY SDFINRMHNQ IPQITCDGKR
410 420 430 440 450
LQVIVCSATL HSFDVKKLSE KIMHFPTWVD LKGEDSVPDT VHHVVVPVNP
460 470 480 490 500
KTDKLWERLG KNHIRTDDVH AKDNTRPGAN SPEMWSEAIK ILKGEYAVRA
510 520 530 540 550
IKEHKMDQAI IFCRTKIDCD NLEQYFMQQG GGPDKKGHQF SCVCLHGDRK
560 570 580 590 600
PHERKQNLER FKKGDVRFLI CTDVAARGID IHGVPYVINV TLPDEKQNYV
610 620 630 640 650
HRIGRVGRAE RMGLAISLVA TEKEKVWYHV CSNRGKGCYN TRLKEDGGCT
660 670 680 690 700
IWYNEMQLLS EIEEHLNCTI SQVEPDIKVP VDEFDGKVTY GQKRAAGGGN
710 720 730 740
YKGHVDVLAP TVQELAALEK EAQTSFLHLG YLPNQLFRTF
Length:740
Mass (Da):82,500
Last modified:December 1, 2001 - v1
Checksum:i76457FBB75A3CEC2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK028341 mRNA. Translation: BAC25893.1.
AK153335 mRNA. Translation: BAE31914.1.
AK160982 mRNA. Translation: BAE36130.1.
BC010624 mRNA. Translation: AAH10624.1.
CCDSiCCDS25819.1.
RefSeqiNP_598801.1. NM_134040.1.
UniGeneiMm.251255.

Genome annotation databases

EnsembliENSMUST00000071103; ENSMUSP00000065987; ENSMUSG00000037149.
GeneIDi104721.
KEGGimmu:104721.
UCSCiuc007nbh.1. mouse.

Similar proteinsi

Entry informationi

Entry nameiDDX1_MOUSE
AccessioniPrimary (citable) accession number: Q91VR5
Secondary accession number(s): Q3TU41
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 27, 2005
Last sequence update: December 1, 2001
Last modified: August 30, 2017
This is version 143 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families