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Protein

ATP-dependent RNA helicase Ddx1

Gene

Ddx1

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript 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 (By similarity).By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi46 – 538ATPPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

  • DNA duplex unwinding Source: UniProtKB
  • double-strand break repair Source: UniProtKB
  • embryonic development via the syncytial blastoderm Source: UniProtKB
  • nucleic acid phosphodiester bond hydrolysis Source: GOC
  • oogenesis Source: FlyBase
  • regulation of nucleic acid-templated transcription Source: GOC
  • ribosome biogenesis Source: FlyBase
  • spermatogenesis Source: FlyBase
Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Helicase, Hydrolase, Nuclease

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent RNA helicase Ddx1 (EC:3.6.4.13)
Short name:
DEAD box protein 1
Gene namesi
Name:Ddx1
ORF Names:CG9054
OrganismiDrosophila melanogaster (Fruit fly)
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraEndopterygotaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
Proteomesi
  • UP000000803 Componenti: Chromosome 3L

Organism-specific databases

FlyBaseiFBgn0015075. Ddx1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 727727ATP-dependent RNA helicase Ddx1PRO_0000054989Add
BLAST

Proteomic databases

PaxDbiQ9VNV3.
PRIDEiQ9VNV3.

Expressioni

Developmental stagei

Expressed both maternally and zygotically throughout development. Expression is highest in early embryos.1 Publication

Gene expression databases

BgeeiQ9VNV3.
GenevisibleiQ9VNV3. DM.

Interactioni

Protein-protein interaction databases

BioGridi65694. 3 interactions.
IntActiQ9VNV3. 1 interaction.
STRINGi7227.FBpp0078144.

Structurei

3D structure databases

ProteinModelPortaliQ9VNV3.
SMRiQ9VNV3. Positions 4-71, 91-612.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 428427Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini69 – 246178B30.2/SPRYPROSITE-ProRule annotationAdd
BLAST
Domaini483 – 676194Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi370 – 3734DEAD box

Sequence similaritiesi

Contains 1 B30.2/SPRY domain.PROSITE-ProRule annotation
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0349. Eukaryota.
COG0513. LUCA.
GeneTreeiENSGT00770000120531.
InParanoidiQ9VNV3.
KOiK13177.
OMAiTLNNVKQ.
OrthoDBiEOG7RNJZJ.
PhylomeDBiQ9VNV3.

Family and domain databases

Gene3Di3.40.50.300. 4 hits.
InterProiIPR001870. 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.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00622. SPRY. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
SM00449. SPRY. 1 hit.
[Graphical view]
SUPFAMiSSF49899. SSF49899. 1 hit.
SSF52540. SSF52540. 3 hits.
PROSITEiPS50188. B302_SPRY. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 2 hits.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9VNV3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTAFEEFGVL PELGMATDEL DWTLPTDVQA EAIPLILGGG DVLMAAETGS
60 70 80 90 100
GKTGAFCLPI LQIVWETLRD LEEGKAGKGG AIGGAVTPWT MSFFDRGNAL
110 120 130 140 150
AVTPDGLRCQ SREFKEWHGC RATTGVRGKG KFYFEATVTD EGLCRVGWST
160 170 180 190 200
QQANLDLGTC RMGFGFGGTG KKSNNRQFDD YGEAFGKADV IGCLLDLKNQ
210 220 230 240 250
EVSFTKNGQN LGVAFRLPDN LAKETFYPAV VLKNAEMQFN FGKTDFKYAP
260 270 280 290 300
GNGFVGACQA GPEHSKANPI TGPAAGAPSA KPAPNAPQAI IMEPSRELAE
310 320 330 340 350
QTYNQIEKFK YHLSNPEVRS LLLIGGVRLE EQKAQLMQGT HIVVGTPGRL
360 370 380 390 400
EEMINSGLVL LTHCRFFVLD EADALLKQGY TELIDRLHKQ IPKITSDGRR
410 420 430 440 450
LQMVVCSATL HAFEVKKMAE RLMHFPTWVD LKGEDAVPET VHHVVCLVDP
460 470 480 490 500
QMDTTWQSLR QPIGTDGVHD RDNVHPGNHS KETLSQAVKL LKGEYCVHAI
510 520 530 540 550
DKHNMDRAII FCRTKQDCDN LERFLRQRGG KHYSCVCLHG DRKPQERKEN
560 570 580 590 600
LEMFKRQQVK FLICTDVAAR GLDITGLPFM INVTLPDDKT NYVHRIGRVG
610 620 630 640 650
RAERMGLAIS LVATVPEKVW YHGEWCKSRG RSCNNTNLTE VRGCCIWYNE
660 670 680 690 700
PNLLAEVEDH LNITIQQVDK TMDVPVNDFD GKVVYGQKNL RTGSGYEDHV
710 720
EQLVPTVRKL TELELQSQSL FLKRLKV
Length:727
Mass (Da):80,869
Last modified:May 1, 2000 - v1
Checksum:i52B7BE91A33599DB
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti78 – 8912KGGAI…AVTPW → QGRCNWRSCDSV in AAC47309 (PubMed:8666277).CuratedAdd
BLAST
Sequence conflicti217 – 2171L → S in AAC47309 (PubMed:8666277).Curated
Sequence conflicti274 – 2796AAGAPS → DSWST in AAC47309 (PubMed:8666277).Curated
Sequence conflicti365 – 3651R → G in AAC47309 (PubMed:8666277).Curated
Sequence conflicti429 – 4291V → G in AAC47309 (PubMed:8666277).Curated
Sequence conflicti458 – 4581S → C in AAD09429 (PubMed:12537569).Curated
Sequence conflicti529 – 5302GG → D in AAC47309 (PubMed:8666277).Curated
Sequence conflicti580 – 58910MINVTLPDDK → SKFSNFETIT in AAD09429 (PubMed:12537569).Curated
Sequence conflicti682 – 6821K → P in AAC47309 (PubMed:8666277).Curated
Sequence conflicti704 – 7041V → E in AAC47309 (PubMed:8666277).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U34773 mRNA. Translation: AAC47309.1.
AE014296 Genomic DNA. Translation: AAF51814.1.
AY119661 mRNA. Translation: AAM50315.1.
AF057167 Genomic DNA. Translation: AAD09429.1.
RefSeqiNP_524212.2. NM_079488.4.
UniGeneiDm.2501.

Genome annotation databases

EnsemblMetazoaiFBtr0078492; FBpp0078144; FBgn0015075.
GeneIDi40457.
KEGGidme:Dmel_CG9054.
UCSCiCG9054-RA. d. melanogaster.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U34773 mRNA. Translation: AAC47309.1.
AE014296 Genomic DNA. Translation: AAF51814.1.
AY119661 mRNA. Translation: AAM50315.1.
AF057167 Genomic DNA. Translation: AAD09429.1.
RefSeqiNP_524212.2. NM_079488.4.
UniGeneiDm.2501.

3D structure databases

ProteinModelPortaliQ9VNV3.
SMRiQ9VNV3. Positions 4-71, 91-612.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi65694. 3 interactions.
IntActiQ9VNV3. 1 interaction.
STRINGi7227.FBpp0078144.

Proteomic databases

PaxDbiQ9VNV3.
PRIDEiQ9VNV3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiFBtr0078492; FBpp0078144; FBgn0015075.
GeneIDi40457.
KEGGidme:Dmel_CG9054.
UCSCiCG9054-RA. d. melanogaster.

Organism-specific databases

CTDi1653.
FlyBaseiFBgn0015075. Ddx1.

Phylogenomic databases

eggNOGiKOG0349. Eukaryota.
COG0513. LUCA.
GeneTreeiENSGT00770000120531.
InParanoidiQ9VNV3.
KOiK13177.
OMAiTLNNVKQ.
OrthoDBiEOG7RNJZJ.
PhylomeDBiQ9VNV3.

Miscellaneous databases

GenomeRNAii40457.
PROiQ9VNV3.

Gene expression databases

BgeeiQ9VNV3.
GenevisibleiQ9VNV3. DM.

Family and domain databases

Gene3Di3.40.50.300. 4 hits.
InterProiIPR001870. 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.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00622. SPRY. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
SM00449. SPRY. 1 hit.
[Graphical view]
SUPFAMiSSF49899. SSF49899. 1 hit.
SSF52540. SSF52540. 3 hits.
PROSITEiPS50188. B302_SPRY. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 2 hits.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A Drosophila melanogaster homologue of the human DEAD-box gene DDX1."
    Rafti F., Scarvelis D., Lasko P.F.
    Gene 171:225-229(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], DEVELOPMENTAL STAGE.
    Tissue: Embryo.
  2. "The genome sequence of Drosophila melanogaster."
    Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D., Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F., George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N., Sutton G.G., Wortman J.R., Yandell M.D.
    , Zhang Q., Chen L.X., Brandon R.C., Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D., Wan K.H., Doyle C., Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G., Abril J.F., Agbayani A., An H.-J., Andrews-Pfannkoch C., Baldwin D., Ballew R.M., Basu A., Baxendale J., Bayraktaroglu L., Beasley E.M., Beeson K.Y., Benos P.V., Berman B.P., Bhandari D., Bolshakov S., Borkova D., Botchan M.R., Bouck J., Brokstein P., Brottier P., Burtis K.C., Busam D.A., Butler H., Cadieu E., Center A., Chandra I., Cherry J.M., Cawley S., Dahlke C., Davenport L.B., Davies P., de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I., Dietz S.M., Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C., Dunn P., Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S., Fleischmann W., Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M., Glasser K., Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M., Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J., Hostin D., Houston K.A., Howland T.J., Wei M.-H., Ibegwam C., Jalali M., Kalush F., Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A., Kimmel B.E., Kodira C.D., Kraft C.L., Kravitz S., Kulp D., Lai Z., Lasko P., Lei Y., Levitsky A.A., Li J.H., Li Z., Liang Y., Lin X., Liu X., Mattei B., McIntosh T.C., McLeod M.P., McPherson D., Merkulov G., Milshina N.V., Mobarry C., Morris J., Moshrefi A., Mount S.M., Moy M., Murphy B., Murphy L., Muzny D.M., Nelson D.L., Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R., Pacleb J.M., Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V., Reese M.G., Reinert K., Remington K., Saunders R.D.C., Scheeler F., Shen H., Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J., Spier E., Spradling A.C., Stapleton M., Strong R., Sun E., Svirskas R., Tector C., Turner R., Venter E., Wang A.H., Wang X., Wang Z.-Y., Wassarman D.A., Weinstock G.M., Weissenbach J., Williams S.M., Woodage T., Worley K.C., Wu D., Yang S., Yao Q.A., Ye J., Yeh R.-F., Zaveri J.S., Zhan M., Zhang G., Zhao Q., Zheng L., Zheng X.H., Zhong F.N., Zhong W., Zhou X., Zhu S.C., Zhu X., Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M., Venter J.C.
    Science 287:2185-2195(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Berkeley.
  3. Cited for: GENOME REANNOTATION.
    Strain: Berkeley.
  4. "A Drosophila full-length cDNA resource."
    Stapleton M., Carlson J.W., Brokstein P., Yu C., Champe M., George R.A., Guarin H., Kronmiller B., Pacleb J.M., Park S., Wan K.H., Rubin G.M., Celniker S.E.
    Genome Biol. 3:RESEARCH0080.1-RESEARCH0080.8(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: Berkeley.
    Tissue: Embryo.
  5. Zinsmaier K.E., Eberle K.K., Buchner E.
    Submitted (APR-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 458-727.
    Strain: Berlin.

Entry informationi

Entry nameiDDX1_DROME
AccessioniPrimary (citable) accession number: Q9VNV3
Secondary accession number(s): O61663, Q24131
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 15, 2002
Last sequence update: May 1, 2000
Last modified: June 8, 2016
This is version 127 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Drosophila
    Drosophila: entries, gene names and cross-references to FlyBase
  2. 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.