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Protein

DEAD-box ATP-dependent RNA helicase 28

Gene

RH28

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi211 – 2188ATPPROSITE-ProRule annotation

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciARA:GQT-2650-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DEAD-box ATP-dependent RNA helicase 28 (EC:3.6.4.13)
Gene namesi
Name:RH28
Ordered Locus Names:At4g16630
ORF Names:dl4340c, FCAALL.424
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

TAIRiAT4G16630.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 789789DEAD-box ATP-dependent RNA helicase 28PRO_0000239168Add
BLAST

Proteomic databases

PaxDbiQ9ZRZ8.
PRIDEiQ9ZRZ8.

PTM databases

iPTMnetiQ9ZRZ8.

Expressioni

Gene expression databases

GenevisibleiQ9ZRZ8. AT.

Interactioni

Protein-protein interaction databases

BioGridi12657. 4 interactions.
IntActiQ9ZRZ8. 4 interactions.
STRINGi3702.AT4G16630.1.

Structurei

3D structure databases

ProteinModelPortaliQ9ZRZ8.
SMRiQ9ZRZ8. Positions 168-564.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini198 – 372175Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini402 – 546145Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili13 – 6654Sequence analysisAdd
BLAST
Coiled coili110 – 13526Sequence analysisAdd
BLAST
Coiled coili563 – 59129Sequence analysisAdd
BLAST
Coiled coili628 – 67750Sequence analysisAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi167 – 19529Q motifAdd
BLAST
Motifi320 – 3234DEAD box

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi14 – 148135Glu-richAdd
BLAST

Domaini

The Q motif is unique to and characteristic of the DEAD box family of RNA helicases and controls ATP binding and hydrolysis.

Sequence similaritiesi

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

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG0338. Eukaryota.
COG0513. LUCA.
HOGENOMiHOG000265456.
InParanoidiQ9ZRZ8.
KOiK13181.
OMAiMEDQYSA.
PhylomeDBiQ9ZRZ8.

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.

Q9ZRZ8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPSSFFFEDA SDDELELIRN QEDSSEEDVK EGEAEEHEAG EDEDGEEEYE
60 70 80 90 100
EEDDDEEEED EKRKRDADAQ SPWDFASYSS SVGEEHARRH TTSIDEKISK
110 120 130 140 150
AIQHRPVPIS INEEEEEEEE EEDASDAETD KQEEYLSEDD EAAEYKPEDA
160 170 180 190 200
TPKPFFSTVD GVSFHADTFM ELNLSRPLLR ACETLGYKKP TPIQAACIPL
210 220 230 240 250
ALTGRDLCAS AITGSGKTAA FALPTLERLL FRPKRVFATR VLILTPTREL
260 270 280 290 300
AVQIHSMIQN LAQFTDIKCG LIVGGLSVRE QEVVLRSMPD IVVATPGRMI
310 320 330 340 350
DHLRNSMSVD LDDLAVLILD EADRLLQTGF ATEITELVRL CPKRRQTMLF
360 370 380 390 400
SATMTEEVKE LVKLSLNKPL RLSADPSARR PPGLTEEVVR IRRTREANQE
410 420 430 440 450
AVLLSLCTRT FKSKVIIFSG TKQAAHRLKI LFGLAGLKAA ELHGNLTQAQ
460 470 480 490 500
RLDSLELFRK QEVDFLIATD VAARGLDIIG VQTVINYACP REIDSYVHRV
510 520 530 540 550
GRTARAGREG YAVTFVTDSD RSLLKVIAKK VGSKLKSRVI PEQSIVKWSQ
560 570 580 590 600
IIDEMEDQYS AVISAERDER ALRKAEMEFA KAENMLEHRD EIYARPKRTW
610 620 630 640 650
FMTEKEKKLV AQAEKDSAGN PAGGELVSAD RAEDLKMKEK RKREREKNLP
660 670 680 690 700
RKKRRKLEAA REMLEDNEGE EEEEDEEGDE KRGRSRGKDK KKQETDKKGL
710 720 730 740 750
TLKDLGYMRA KAVKAKQRAI DSGKMERPKP DKKQSRSKPR NQPRGEEMKD
760 770 780
LFKSDMGEKK QGRGGAAAAA KPRTKSKNSF KSKARYKRR
Length:789
Mass (Da):89,355
Last modified:May 1, 1999 - v1
Checksum:iDF1CCAB61A4DD66D
GO

Sequence cautioni

The sequence CAB10438.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence CAB78705.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ010475 mRNA. Translation: CAA09214.1.
Z97341 Genomic DNA. Translation: CAB10438.1. Sequence problems.
AL161544 Genomic DNA. Translation: CAB78705.1. Sequence problems.
CP002687 Genomic DNA. Translation: AEE83778.1.
AK228353 mRNA. Translation: BAF00292.1.
PIRiD71433.
T51310.
RefSeqiNP_193396.3. NM_117764.4.
UniGeneiAt.49.

Genome annotation databases

EnsemblPlantsiAT4G16630.1; AT4G16630.1; AT4G16630.
GeneIDi827364.
GrameneiAT4G16630.1; AT4G16630.1; AT4G16630.
KEGGiath:AT4G16630.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ010475 mRNA. Translation: CAA09214.1.
Z97341 Genomic DNA. Translation: CAB10438.1. Sequence problems.
AL161544 Genomic DNA. Translation: CAB78705.1. Sequence problems.
CP002687 Genomic DNA. Translation: AEE83778.1.
AK228353 mRNA. Translation: BAF00292.1.
PIRiD71433.
T51310.
RefSeqiNP_193396.3. NM_117764.4.
UniGeneiAt.49.

3D structure databases

ProteinModelPortaliQ9ZRZ8.
SMRiQ9ZRZ8. Positions 168-564.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi12657. 4 interactions.
IntActiQ9ZRZ8. 4 interactions.
STRINGi3702.AT4G16630.1.

PTM databases

iPTMnetiQ9ZRZ8.

Proteomic databases

PaxDbiQ9ZRZ8.
PRIDEiQ9ZRZ8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT4G16630.1; AT4G16630.1; AT4G16630.
GeneIDi827364.
GrameneiAT4G16630.1; AT4G16630.1; AT4G16630.
KEGGiath:AT4G16630.

Organism-specific databases

TAIRiAT4G16630.

Phylogenomic databases

eggNOGiKOG0338. Eukaryota.
COG0513. LUCA.
HOGENOMiHOG000265456.
InParanoidiQ9ZRZ8.
KOiK13181.
OMAiMEDQYSA.
PhylomeDBiQ9ZRZ8.

Enzyme and pathway databases

BioCyciARA:GQT-2650-MONOMER.

Miscellaneous databases

PROiQ9ZRZ8.

Gene expression databases

GenevisibleiQ9ZRZ8. AT.

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...

Publicationsi

« Hide 'large scale' publications
  1. "The DEAD box RNA helicase family in Arabidopsis thaliana."
    Aubourg S., Kreis M., Lecharny A.
    Nucleic Acids Res. 27:628-636(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Columbia.
  2. "Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana."
    Bevan M., Bancroft I., Bent E., Love K., Goodman H.M., Dean C., Bergkamp R., Dirkse W., van Staveren M., Stiekema W., Drost L., Ridley P., Hudson S.-A., Patel K., Murphy G., Piffanelli P., Wedler H., Wedler E.
    , Wambutt R., Weitzenegger T., Pohl T., Terryn N., Gielen J., Villarroel R., De Clercq R., van Montagu M., Lecharny A., Aubourg S., Gy I., Kreis M., Lao N., Kavanagh T., Hempel S., Kotter P., Entian K.-D., Rieger M., Schaefer M., Funk B., Mueller-Auer S., Silvey M., James R., Monfort A., Pons A., Puigdomenech P., Douka A., Voukelatou E., Milioni D., Hatzopoulos P., Piravandi E., Obermaier B., Hilbert H., Duesterhoeft A., Moores T., Jones J.D.G., Eneva T., Palme K., Benes V., Rechmann S., Ansorge W., Cooke R., Berger C., Delseny M., Voet M., Volckaert G., Mewes H.-W., Klosterman S., Schueller C., Chalwatzis N.
    Nature 391:485-488(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
    Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B.
    , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
    Nature 402:769-777(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  5. "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
    Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.
    , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
    Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  6. "DEAD-box RNA helicases in Arabidopsis thaliana: establishing a link between quantitative expression, gene structure and evolution of a family of genes."
    Mingam A., Toffano-Nioche C., Brunaud V., Boudet N., Kreis M., Lecharny A.
    Plant Biotechnol. J. 2:401-415(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, NOMENCLATURE.
  7. "Genome-wide comparative in silico analysis of the RNA helicase gene family in Zea mays and Glycine max: a comparison with Arabidopsis and Oryza sativa."
    Xu R., Zhang S., Huang J., Zheng C.
    PLoS ONE 8:E78982-E78982(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY.

Entry informationi

Entry nameiRH28_ARATH
AccessioniPrimary (citable) accession number: Q9ZRZ8
Secondary accession number(s): O23506, Q0WRF7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: May 1, 1999
Last modified: February 17, 2016
This is version 108 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  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.