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Protein

Probable ATP-dependent RNA helicase DDX4

Gene

Ddx4

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Probable ATP-dependent RNA helicase required during spermatogenesis to repress transposable elements and preventing their mobilization, which is essential for the germline integrity. Acts via the piRNA metabolic process, which mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposons. Involved in the secondary piRNAs metabolic process, the production of piRNAs in fetal male germ cells through a ping-pong amplification cycle.By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi317 – 324ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Helicase, Hydrolase

Keywords - Biological processi

Differentiation, Meiosis, RNA-mediated gene silencing, Spermatogenesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Probable ATP-dependent RNA helicase DDX4 (EC:3.6.4.13)
Alternative name(s):
DEAD box protein 4
Vasa homolog
Short name:
rVLG
Gene namesi
Name:Ddx4
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi1308793. Ddx4.

Subcellular locationi

  • Cytoplasm By similarity
  • Cytoplasmperinuclear region By similarity

  • Note: Component of the meiotic nuage, also named P granule, a germ-cell-specific organelle required to repress transposon activity during meiosis.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000549811 – 713Probable ATP-dependent RNA helicase DDX4Add BLAST713

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei207PhosphoserineCombined sources1
Modified residuei211PhosphoserineBy similarity1
Modified residuei711PhosphoserineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ64060.
PRIDEiQ64060.

PTM databases

iPTMnetiQ64060.
PhosphoSitePlusiQ64060.

Expressioni

Tissue specificityi

Testis.

Interactioni

Subunit structurei

Found in a mRNP complex, at least composed of TDRD1, TDRD6, TDRD7 and DDX4. N-terminus interacts with RANBP9. Interacts with PIWIL2 and MAEL. Interacts with ARNTL/BMAL1 and CLOCK.By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000013035.

Structurei

3D structure databases

ProteinModelPortaliQ64060.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini304 – 487Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST184
Domaini515 – 660Helicase C-terminalPROSITE-ProRule annotationAdd BLAST146

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi273 – 301Q motifAdd BLAST29
Motifi431 – 434DEAD box4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi58 – 219Gly-richAdd BLAST162

Sequence similaritiesi

Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0335. Eukaryota.
ENOG410XNTI. LUCA.
HOVERGENiHBG015893.
InParanoidiQ64060.
KOiK13982.
PhylomeDBiQ64060.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q64060-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGDEDWEAEI LKPHVSSYVP VFEKDKYSSG ANGDTFNRTS ASSSEMEDGP
60 70 80 90 100
SGRDHFMRSG FSSGRNLGNR DIGESSKRET TSTTGGFGRG KGFGNRGFLN
110 120 130 140 150
NKFEEGDSSG FWKESTNDCE DTQTRSRGFS KRGGYPDGND SEASGPFRRG
160 170 180 190 200
GRDSEYDQDQ GSQRGGGLFG SRKPAASDSG SGDTFQSRSG NARGAYKGLN
210 220 230 240 250
EEVVTGSGKN SWKSEAEGGE SSDIQGPKVT YIPPPPPEDE DSIFAHYQTG
260 270 280 290 300
INFDKYDTIL VEVSGHDAPP AILTFEEANL CQTLNNNIAK AGYTKLTPVQ
310 320 330 340 350
KYSIPIVLAG RDLMACAQTG SGKTAAFLLP ILAHMMRDGI TASRFKELQE
360 370 380 390 400
PECIIVAPTR ELINQIYLEA RKFSFGTCVR AVVIYGGTQF GHSIRQIVQG
410 420 430 440 450
CNILCATPGR LMDIIGKEKI GLKQVKYLVL DEADRMLDMG FGPEMKKLIS
460 470 480 490 500
CPGMPSKEQR QTLLFSATFP EEIQRLAGEF LKSNYLFVAV GQVGGACRDV
510 520 530 540 550
QQSILQVGPV FKKRKLVEIL RNIGDERPMV FVETKKKADF IATFLCQEKI
560 570 580 590 600
STTSIHGDRE QREREQALGD FRCGKCPVLV ATSVAARGLD IENVQHVINF
610 620 630 640 650
NLPSTIDEYV HRIGRTGRCG NTGRAISFFD TESDNHLAQP LVKVLSDAQQ
660 670 680 690 700
DVPAWLEEIA FSSYAPPSFS NSTRGAVFAS FDTRKNFQGK NTLNTAGISS
710
AQAPNPVDDE SWD
Length:713
Mass (Da):77,955
Last modified:November 1, 1996 - v1
Checksum:iA31A4542EF7237F6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S75275 mRNA. Translation: AAB33364.1.
PIRiJC2534.
RefSeqiNP_001071115.1. NM_001077647.1.
UniGeneiRn.198577.

Genome annotation databases

GeneIDi310090.
KEGGirno:310090.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S75275 mRNA. Translation: AAB33364.1.
PIRiJC2534.
RefSeqiNP_001071115.1. NM_001077647.1.
UniGeneiRn.198577.

3D structure databases

ProteinModelPortaliQ64060.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000013035.

PTM databases

iPTMnetiQ64060.
PhosphoSitePlusiQ64060.

Proteomic databases

PaxDbiQ64060.
PRIDEiQ64060.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi310090.
KEGGirno:310090.

Organism-specific databases

CTDi54514.
RGDi1308793. Ddx4.

Phylogenomic databases

eggNOGiKOG0335. Eukaryota.
ENOG410XNTI. LUCA.
HOVERGENiHBG015893.
InParanoidiQ64060.
KOiK13982.
PhylomeDBiQ64060.

Miscellaneous databases

PROiQ64060.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDDX4_RAT
AccessioniPrimary (citable) accession number: Q64060
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 114 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.