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Protein

DEAD-box ATP-dependent RNA helicase 14

Gene

RH14

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

ATP-dependent RNA helicase involved nonsense-mediated mRNA decay and ribosome biogenesis through rRNA processing.By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi202 – 2098ATPPROSITE-ProRule annotation

GO - Molecular functioni

  • ATPase activity Source: TAIR
  • ATP binding Source: UniProtKB-KW
  • ATP-dependent RNA helicase activity Source: TAIR
  • RNA binding Source: UniProtKB-KW

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Nonsense-mediated mRNA decay, Ribosome biogenesis, rRNA processing

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciARA:AT3G01540-MONOMER.
ARA:GQT-153-MONOMER.
ARA:GQT-154-MONOMER.
ARA:GQT-155-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DEAD-box ATP-dependent RNA helicase 14 (EC:3.6.4.13)
Gene namesi
Name:RH14
Synonyms:DRH1
Ordered Locus Names:At3g01540
ORF Names:F4P13.9
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G01540.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedCombined sources
Chaini2 – 619618DEAD-box ATP-dependent RNA helicase 14PRO_0000239156Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineCombined sources
Modified residuei136 – 1361PhosphoserineCombined sources

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ8H136.
PRIDEiQ8H136.

PTM databases

iPTMnetiQ8H136.

Expressioni

Tissue specificityi

Ubiquitous. Preferentially expressed in flowers and roots.2 Publications

Inductioni

Down-regulated by abscisic acid (ABA), salt and cold treatments.1 Publication

Gene expression databases

GenevisibleiQ8H136. AT.

Interactioni

Protein-protein interaction databases

BioGridi6449. 1 interaction.
IntActiQ8H136. 1 interaction.
STRINGi3702.AT3G01540.2.

Structurei

3D structure databases

ProteinModelPortaliQ8H136.
SMRiQ8H136. Positions 14-55, 138-529.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini17 – 5135WWPROSITE-ProRule annotationAdd
BLAST
Domaini189 – 363175Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini392 – 536145Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi158 – 18629Q motifAdd
BLAST
Motifi311 – 3144DEAD box

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
Contains 1 WW domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0331. Eukaryota.
COG0513. LUCA.
HOGENOMiHOG000268804.
InParanoidiQ8H136.
KOiK12823.
OMAiYAPEDHT.
PhylomeDBiQ8H136.

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.
IPR001202. WW_dom.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00397. WW. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
SM00456. WW. 1 hit.
[Graphical view]
SUPFAMiSSF51045. SSF51045. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
PS01159. WW_DOMAIN_1. 1 hit.
PS50020. WW_DOMAIN_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8H136-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAATAAASVV RYAPEDHTLP KPWKGLIDDR TGYLYFWNPE TNVTQYEKPT
60 70 80 90 100
PSLPPKFSPA VSVSSSVQVQ QTDAYAPPKD DDKYSRGSER VSRFSEGGRS
110 120 130 140 150
GPPYSNGAAN GVGDSAYGAA STRVPLPSSA PASELSPEAY SRRHEITVSG
160 170 180 190 200
GQVPPPLMSF EATGFPPELL REVLSAGFSA PTPIQAQSWP IAMQGRDIVA
210 220 230 240 250
IAKTGSGKTL GYLIPGFLHL QRIRNDSRMG PTILVLSPTR ELATQIQEEA
260 270 280 290 300
VKFGRSSRIS CTCLYGGAPK GPQLRDLERG ADIVVATPGR LNDILEMRRI
310 320 330 340 350
SLRQISYLVL DEADRMLDMG FEPQIRKIVK EIPTKRQTLM YTATWPKGVR
360 370 380 390 400
KIAADLLVNP AQVNIGNVDE LVANKSITQH IEVVAPMEKQ RRLEQILRSQ
410 420 430 440 450
EPGSKVIIFC STKRMCDQLT RNLTRQFGAA AIHGDKSQPE RDNVLNQFRS
460 470 480 490 500
GRTPVLVATD VAARGLDVKD IRAVVNYDFP NGVEDYVHRI GRTGRAGATG
510 520 530 540 550
QAFTFFGDQD SKHASDLIKI LEGANQRVPP QIREMATRGG GGMNKFSRWG
560 570 580 590 600
PPSGGRGRGG DSGYGGRGSF ASRDSRSSNG WGRERERSRS PERFNRAPPP
610
SSTGSPPRSF HETMMMKHR
Length:619
Mass (Da):67,728
Last modified:May 30, 2006 - v2
Checksum:i22B36764260AFFBE
GO
Isoform 2 (identifier: Q8H136-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     575-575: Missing.

Note: May be due to a competing acceptor splice site. No experimental confirmation available.
Show »
Length:618
Mass (Da):67,641
Checksum:i1919087432816E58
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti587 – 5871R → K in AAL32669 (PubMed:14593172).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei575 – 5751Missing in isoform 2. 1 PublicationVSP_019098

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB010259 mRNA. Translation: BAA28347.1.
AC009325 Genomic DNA. Translation: AAF01539.1.
CP002686 Genomic DNA. Translation: AEE73683.1.
CP002686 Genomic DNA. Translation: AEE73684.1.
CP002686 Genomic DNA. Translation: AEE73685.1.
CP002686 Genomic DNA. Translation: AEE73686.1.
AY062591 mRNA. Translation: AAL32669.1.
AF428313 mRNA. Translation: AAL16243.1.
AY050375 mRNA. Translation: AAK91393.1.
BT000795 mRNA. Translation: AAN31934.1.
BT009670 mRNA. Translation: AAP78938.1.
PIRiT52137.
RefSeqiNP_001030619.1. NM_001035542.1. [Q8H136-1]
NP_566141.1. NM_111020.2. [Q8H136-2]
NP_850492.1. NM_180161.1. [Q8H136-1]
NP_974206.1. NM_202477.2. [Q8H136-1]
UniGeneiAt.22096.

Genome annotation databases

EnsemblPlantsiAT3G01540.2; AT3G01540.2; AT3G01540. [Q8H136-1]
AT3G01540.3; AT3G01540.3; AT3G01540. [Q8H136-1]
AT3G01540.4; AT3G01540.4; AT3G01540. [Q8H136-1]
GeneIDi821116.
KEGGiath:AT3G01540.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB010259 mRNA. Translation: BAA28347.1.
AC009325 Genomic DNA. Translation: AAF01539.1.
CP002686 Genomic DNA. Translation: AEE73683.1.
CP002686 Genomic DNA. Translation: AEE73684.1.
CP002686 Genomic DNA. Translation: AEE73685.1.
CP002686 Genomic DNA. Translation: AEE73686.1.
AY062591 mRNA. Translation: AAL32669.1.
AF428313 mRNA. Translation: AAL16243.1.
AY050375 mRNA. Translation: AAK91393.1.
BT000795 mRNA. Translation: AAN31934.1.
BT009670 mRNA. Translation: AAP78938.1.
PIRiT52137.
RefSeqiNP_001030619.1. NM_001035542.1. [Q8H136-1]
NP_566141.1. NM_111020.2. [Q8H136-2]
NP_850492.1. NM_180161.1. [Q8H136-1]
NP_974206.1. NM_202477.2. [Q8H136-1]
UniGeneiAt.22096.

3D structure databases

ProteinModelPortaliQ8H136.
SMRiQ8H136. Positions 14-55, 138-529.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi6449. 1 interaction.
IntActiQ8H136. 1 interaction.
STRINGi3702.AT3G01540.2.

PTM databases

iPTMnetiQ8H136.

Proteomic databases

PaxDbiQ8H136.
PRIDEiQ8H136.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G01540.2; AT3G01540.2; AT3G01540. [Q8H136-1]
AT3G01540.3; AT3G01540.3; AT3G01540. [Q8H136-1]
AT3G01540.4; AT3G01540.4; AT3G01540. [Q8H136-1]
GeneIDi821116.
KEGGiath:AT3G01540.

Organism-specific databases

TAIRiAT3G01540.

Phylogenomic databases

eggNOGiKOG0331. Eukaryota.
COG0513. LUCA.
HOGENOMiHOG000268804.
InParanoidiQ8H136.
KOiK12823.
OMAiYAPEDHT.
PhylomeDBiQ8H136.

Enzyme and pathway databases

BioCyciARA:AT3G01540-MONOMER.
ARA:GQT-153-MONOMER.
ARA:GQT-154-MONOMER.
ARA:GQT-155-MONOMER.

Miscellaneous databases

PROiQ8H136.

Gene expression databases

GenevisibleiQ8H136. 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.
IPR001202. WW_dom.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
PF00397. WW. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
SM00456. WW. 1 hit.
[Graphical view]
SUPFAMiSSF51045. SSF51045. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
PS01159. WW_DOMAIN_1. 1 hit.
PS50020. WW_DOMAIN_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of a DEAD box ATPase/RNA helicase protein of Arabidopsis thaliana."
    Okanami M., Meshi T., Iwabuchi M.
    Nucleic Acids Res. 26:2638-2643(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY, INDUCTION.
  2. "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
    Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F.
    , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
    Strain: cv. Columbia.
  5. "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, TISSUE SPECIFICITY.
  6. "Phosphoproteomic analysis of nuclei-enriched fractions from Arabidopsis thaliana."
    Jones A.M.E., MacLean D., Studholme D.J., Serna-Sanz A., Andreasson E., Rathjen J.P., Peck S.C.
    J. Proteomics 72:439-451(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-136, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: cv. Columbia.
  7. "Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks."
    Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S.
    Plant Physiol. 150:889-903(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  8. "Comparative large-scale characterisation of plant vs. mammal proteins reveals similar and idiosyncratic N-alpha acetylation features."
    Bienvenut W.V., Sumpton D., Martinez A., Lilla S., Espagne C., Meinnel T., Giglione C.
    Mol. Cell. Proteomics 11:M111.015131-M111.015131(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS], IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  9. "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 nameiRH14_ARATH
AccessioniPrimary (citable) accession number: Q8H136
Secondary accession number(s): O64430, Q8W4F5, Q93WJ3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: May 30, 2006
Last modified: February 17, 2016
This is version 99 of the entry and version 2 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.