Reviewed, UniProtKB/Swiss-Prot Q5VQL1 (RH14_ORYSJ)

Names and origin

Protein names

Recommended name:
    DEAD-box ATP-dependent RNA helicase 14
    EC=3.6.1.-

Gene names

Ordered Locus Names:	Os01g0172200, LOC_Os01g07740
ORF Names:	P0583G08.30-1, P0583G08.30-2

Organism

Oryza sativa subsp. japonica (Rice)

Taxonomic identifier

39947 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › Liliopsida › Poales › Poaceae › BEP clade › Ehrhartoideae › Oryzeae › Oryza

Protein attributes

Sequence length	708 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Function	ATP-dependent RNA helicase involved nonsense-mediated mRNA decay and ribosome biogenesis through rRNA processing By similarity.
Subcellular location	NucleusBy similarity.
Domain	The Q motif is unique to and characteristic of the DEAD box family of RNA helicases and controls ATP binding and hydrolysis.
Sequence similarities	Belongs to the DEAD box helicase family. DDX5/DBP2 subfamily. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain. Contains 1 WW domain.

Ontologies

Keywords
Biological process	Nonsense-mediated mRNA decay Ribosome biogenesis rRNA processing
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	ATP-binding Nucleotide-binding RNA-binding
Molecular function	Helicase Hydrolase
Gene Ontology (GO)
None. [Check GOA]

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q5VQL1-1)

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.

Notes: Derived from EST data. No experimental confirmation available.

Isoform 2 (identifier: Q5VQL1-2)

The sequence of this isoform differs from the canonical sequence as follows:
     195-195: V → VSAHNLHDYLMHFLVSFSKEIRRSLCVHTTYVITTLDVHLSRLFKSTIYVKV

Notes: No experimental confirmation available.

Isoform 3 (identifier: Q5VQL1-3)

The sequence of this isoform differs from the canonical sequence as follows:
     650-650: Missing.

Notes: Derived from EST data. May be due to competing acceptor splice site. No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view
Molecule processing
	Chain	1 – 708	708	DEAD-box ATP-dependent RNA helicase 14
Regions
	Domain	21 – 55	35	WW
	Domain	211 – 385	175	Helicase ATP-binding
	Domain	414 – 558	145	Helicase C-terminal
	Nucleotide binding	224 – 231	8	ATP By similarity
	Motif	180 – 208	29	Q motif
	Motif	333 – 336	4	DEAD box
	Compositional bias	2 – 11	10	Poly-Ala
	Compositional bias	572 – 675	104	Ser-rich
Natural variations
	Alternative sequence	195	1	V → VSAHNLHDYLMHFLVSFSKE IRRSLCVHTTYVITTLDVHL SRLFKSTIYVKV in isoform 2.
	Alternative sequence	650	1	Missing in isoform 3.

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified December 7, 2004. Version 1. Checksum: 64691FB4539E972E	FASTA	708	77,297
	10 20 30 40 50 60 MASAAAAAAT ARGPRYAPPD PTLPKPWRGL IDGNTGYLYF WNPETKAVQY DRPTAPPPSS 70 80 90 100 110 120 PPAQQPPERP RNSDPAESQA QAGASRTQNA APADDRARND HLNDHFERRT EAAGSHAQNV 130 140 150 160 170 180 PFTEQNTRSN PSSQPCSAAG VYPAQNVFSE AASGDRTSPE AYRAKHEITI VGNEAPAPFM 190 200 210 220 230 240 TFQSTGFPPE ILREVQQAGF SAPTPIQAQS WPIALRNRDI VAVAKTGSGK TLGYLIPGFI 250 260 270 280 290 300 LLKRLQHNSR DGPTVLVLSP TRELATQIQD EAKKFGRSSR ISSVCLYGGA PKGPQLRDLE 310 320 330 340 350 360 RGADIVVATP GRLNDILEMR RVSLHQVSYL VLDEADRMLD MGFEPQIRKI VKQVQPKRQT 370 380 390 400 410 420 LMFTATWPKE VRKIASDLLS NPVQVNIGNT DQLVANKSIT QYVDVITPPE KSRRLDQILR 430 440 450 460 470 480 SQEPGSKIII FCSTKRMCDQ LARNLARQYG ASAIHGDKSQ AERDSVLSEF RSGRCPILVA 490 500 510 520 530 540 TDVAARGLDI KDIRVVVNYD FPTGVEDYVH RIGRTGRAGA TGVAYTFFCD QDSKYASDLV 550 560 570 580 590 600 KILEGANQSV SQQLRDMVSR GGYGGRSRRW ASSDDSYGGR GYDSGYTSRS TDNYNSGYGS 610 620 630 640 650 660 QSGNGSSFHS SFHNSNSGNQ FGDTSGFQTS FHNSSSNNQT SDNPSFHASS NNDQPGDGLS 670 680 690 700 FHARFYSSSR GSDQSRTNNA GFRDRSRSPP SNRNHEDPGS KAVGVSNW
	Isoform 2 [UniParc]. Checksum: 90828F78566EAB4E		759	83,300
	10 20 30 40 50 60 MASAAAAAAT ARGPRYAPPD PTLPKPWRGL IDGNTGYLYF WNPETKAVQY DRPTAPPPSS 70 80 90 100 110 120 PPAQQPPERP RNSDPAESQA QAGASRTQNA APADDRARND HLNDHFERRT EAAGSHAQNV 130 140 150 160 170 180 PFTEQNTRSN PSSQPCSAAG VYPAQNVFSE AASGDRTSPE AYRAKHEITI VGNEAPAPFM 190 200 210 220 230 240 TFQSTGFPPE ILREVSAHNL HDYLMHFLVS FSKEIRRSLC VHTTYVITTL DVHLSRLFKS 250 260 270 280 290 300 TIYVKVQQAG FSAPTPIQAQ SWPIALRNRD IVAVAKTGSG KTLGYLIPGF ILLKRLQHNS 310 320 330 340 350 360 RDGPTVLVLS PTRELATQIQ DEAKKFGRSS RISSVCLYGG APKGPQLRDL ERGADIVVAT 370 380 390 400 410 420 PGRLNDILEM RRVSLHQVSY LVLDEADRML DMGFEPQIRK IVKQVQPKRQ TLMFTATWPK 430 440 450 460 470 480 EVRKIASDLL SNPVQVNIGN TDQLVANKSI TQYVDVITPP EKSRRLDQIL RSQEPGSKII 490 500 510 520 530 540 IFCSTKRMCD QLARNLARQY GASAIHGDKS QAERDSVLSE FRSGRCPILV ATDVAARGLD 550 560 570 580 590 600 IKDIRVVVNY DFPTGVEDYV HRIGRTGRAG ATGVAYTFFC DQDSKYASDL VKILEGANQS 610 620 630 640 650 660 VSQQLRDMVS RGGYGGRSRR WASSDDSYGG RGYDSGYTSR STDNYNSGYG SQSGNGSSFH 670 680 690 700 710 720 SSFHNSNSGN QFGDTSGFQT SFHNSSSNNQ TSDNPSFHAS SNNDQPGDGL SFHARFYSSS 730 740 750 RGSDQSRTNN AGFRDRSRSP PSNRNHEDPG SKAVGVSNW
	Isoform 3 [UniParc]. Checksum: E40CD8FF68D69F77		707	77,210
	10 20 30 40 50 60 MASAAAAAAT ARGPRYAPPD PTLPKPWRGL IDGNTGYLYF WNPETKAVQY DRPTAPPPSS 70 80 90 100 110 120 PPAQQPPERP RNSDPAESQA QAGASRTQNA APADDRARND HLNDHFERRT EAAGSHAQNV 130 140 150 160 170 180 PFTEQNTRSN PSSQPCSAAG VYPAQNVFSE AASGDRTSPE AYRAKHEITI VGNEAPAPFM 190 200 210 220 230 240 TFQSTGFPPE ILREVQQAGF SAPTPIQAQS WPIALRNRDI VAVAKTGSGK TLGYLIPGFI 250 260 270 280 290 300 LLKRLQHNSR DGPTVLVLSP TRELATQIQD EAKKFGRSSR ISSVCLYGGA PKGPQLRDLE 310 320 330 340 350 360 RGADIVVATP GRLNDILEMR RVSLHQVSYL VLDEADRMLD MGFEPQIRKI VKQVQPKRQT 370 380 390 400 410 420 LMFTATWPKE VRKIASDLLS NPVQVNIGNT DQLVANKSIT QYVDVITPPE KSRRLDQILR 430 440 450 460 470 480 SQEPGSKIII FCSTKRMCDQ LARNLARQYG ASAIHGDKSQ AERDSVLSEF RSGRCPILVA 490 500 510 520 530 540 TDVAARGLDI KDIRVVVNYD FPTGVEDYVH RIGRTGRAGA TGVAYTFFCD QDSKYASDLV 550 560 570 580 590 600 KILEGANQSV SQQLRDMVSR GGYGGRSRRW ASSDDSYGGR GYDSGYTSRS TDNYNSGYGS 610 620 630 640 650 660 QSGNGSSFHS SFHNSNSGNQ FGDTSGFQTS FHNSSSNNQT SDNPSFHASN NDQPGDGLSF 670 680 690 700 HARFYSSSRG SDQSRTNNAG FRDRSRSPPS NRNHEDPGSK AVGVSNW

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The genome sequence and structure of rice chromosome 1." Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y., Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H., Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M. , Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T. Nature 420:312-316(2002) [PubMed: 12447438] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[2]	"The map-based sequence of the rice genome." International rice genome sequencing project (IRGSP) Nature 436:793-800(2005) [PubMed: 16100779] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[3]	"Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana." The rice annotation project (RAP) Genome Res. 17:175-183(2007) [PubMed: 17210932] [Abstract] Cited for: GENOME REANNOTATION. Strain: cv. Nipponbare.
[4]	"Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice." The rice full-length cDNA consortium Science 301:376-379(2003) [PubMed: 12869764] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: cv. Nipponbare.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AP003282 Genomic DNA. Translation: BAD68263.1. AP003282 Genomic DNA. Translation: BAD68264.1. AP008207 Genomic DNA. Translation: BAF04065.1. AK100326 mRNA. No translation available.
RefSeq	NP_001042151.1.
UniGene	Os.7205
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4327645.
KEGG	osa:4327645.
Organism-specific databases
Gramene	Q5VQL1.
Family and domain databases
InterPro	IPR014001. DEAD-like_N. IPR001650. DNA/RNA_helicase_C. IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. IPR014021. Helicase_SF1/SF2_ATP-bd. IPR000629. RNA-helicase_DEAD-box_CS. IPR014014. RNA_helicase_DEAD_Q_motif. IPR001202. WW_Rsp5_WWP. [Graphical view]
Pfam	PF00270. DEAD. 1 hit. PF00271. Helicase_C. 1 hit. PF00397. WW. 1 hit. [Graphical view]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. SM00456. WW. 1 hit. [Graphical view]
PROSITE	PS00039. 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. False negative. PS50020. WW_DOMAIN_2. 1 hit. [Graphical view]
ProDom	Q5VQL1. [Graphical view] [Entries sharing at least one domain]
BLOCKS	Search...
Other Resources
ProtoNet	Search...

Entry information

Entry name

RH14_ORYSJ

Accession

Primary (citable) accession number: Q5VQL1
Secondary accession number(s): Q5VQL2

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 3, 2007
Last sequence update:	December 7, 2004
Last modified:	July 22, 2008
This is version 30 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)