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Protein

Probable ATP-dependent RNA helicase DHR1

Gene

ECM16

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Probable ATP-binding RNA helicase. Required for 18S rRNA synthesis. May play a role in restructuring of the pre-rRNA.1 Publication

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi414 – 4218ATPPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

  • maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • ribosome biogenesis Source: SGD
  • rRNA methylation Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase, Ribonucleoprotein

Keywords - Biological processi

Ribosome biogenesis, rRNA processing

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-32821-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable ATP-dependent RNA helicase DHR1 (EC:3.6.4.13)
Alternative name(s):
DEAH box RNA helicase DHR1
Extracellular mutant protein 16
Gene namesi
Name:ECM16
Synonyms:DHR1
Ordered Locus Names:YMR128W
ORF Names:YM9553.04
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIII

Organism-specific databases

EuPathDBiFungiDB:YMR128W.
SGDiS000004735. ECM16.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: SGD
  • nucleoplasm Source: Reactome
  • small-subunit processome Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12671267Probable ATP-dependent RNA helicase DHR1PRO_0000055162Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei181 – 1811PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ04217.
PRIDEiQ04217.

PTM databases

iPTMnetiQ04217.

Interactioni

Subunit structurei

Interacts with snoRNA U3. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
MPP10P470832EBI-1820,EBI-11168

Protein-protein interaction databases

BioGridi35305. 64 interactions.
DIPiDIP-6722N.
IntActiQ04217. 29 interactions.
MINTiMINT-614026.

Structurei

3D structure databases

ProteinModelPortaliQ04217.
SMRiQ04217. Positions 383-642, 708-941.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini401 – 580180Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini675 – 858184Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi516 – 5194DEAH box

Sequence similaritiesi

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

Phylogenomic databases

GeneTreeiENSGT00550000074985.
HOGENOMiHOG000201240.
InParanoidiQ04217.
KOiK14780.
OMAiYVFDCGR.
OrthoDBiEOG79PJXZ.

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR002464. DNA/RNA_helicase_DEAH_CS.
IPR011709. DUF1605.
IPR007502. Helicase-assoc_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF04408. HA2. 1 hit.
PF00271. Helicase_C. 1 hit.
PF07717. OB_NTP_bind. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00847. HA2. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS00690. DEAH_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q04217-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGTYRKRFNE KARSGHMAKL KELKRIRNKQ FTRQDENDER VENPDSAPAE
60 70 80 90 100
SSTTEPNANA EILEPLTEEE KKMKKRKLQE LFTPKESKVS RLKKKRLDKF
110 120 130 140 150
IEHQLKREER KTIIGKLQDY KIDTSLLTSS KRLGEGRQTK KEEFKEALSL
160 170 180 190 200
ERQGRGNEQT NEILYEEYEP KVWDEYGEGG SSEDDDGEDD FEASFGSMPK
210 220 230 240 250
PTDNEEKKSS GFIDHRPAKF GGSGLSFGFS NIKVINKESK TPKKKYNWRQ
260 270 280 290 300
RVEMEELKKH GKEDEMDFDT TSEDDDEEED QEEEDKMHPS ENPLEEVESA
310 320 330 340 350
DSETGSEKFD QNDVANEFKD WANQEIKKLE GRDQELVTPT LNIDYKPIIR
360 370 380 390 400
KEDLDDGLQE AYVPINENST RKAFYVEVSR SDEIQKARIQ LPVFGEEHKI
410 420 430 440 450
MEAIHHNDVV IICGETGSGK TTQVPQFLYE AGFGAEDSPD YPGMVGITQP
460 470 480 490 500
RRVAAVSMAE RVANELGDHG HKVGYQIRFD STAKEDTKVK FMTDGVLLRE
510 520 530 540 550
MMHDFKLTKY SSIIIDEAHE RNINTDILIG MLSRCVRLRA KLHKENPIEH
560 570 580 590 600
KKLKLIIMSA TLRVSDFSEN KTLFPIAPPV LQVDARQFPV SIHFNRRTAF
610 620 630 640 650
NYTDEAFRKT CKIHQKLPPG AILVFLTGQQ EITHMVKRLR KEFPFKKNSK
660 670 680 690 700
YNKDLETPVS KMGINSKTTD LEAEDIDFSV QVIDQDKFKS AIRYEEDEGN
710 720 730 740 750
SGNGEDEEDE EEEGFEEVLT EGQTANDPLY VLPLYSLLPT KEQMRVFQKP
760 770 780 790 800
PQGSRLCIVA TNVAETSLTI PGVRYVVDSG RSKERKYNES NGVQSFEVGW
810 820 830 840 850
VSKASANQRS GRAGRTGPGH CYRLYSSAVF EHDFEQFSKP EILRMPVESI
860 870 880 890 900
VLQMKSMAIH NIINFPFPTP PDRVALSKAI QLLQYLGALD NKEMITEDGK
910 920 930 940 950
KMSLFPLSPR FSKMLLVSDE KACLPYIVAI VSALSVGDPF INEFELGINE
960 970 980 990 1000
ISRKPNPDEN LDDKIREHDE STPGMDPELK KELRSKFYKS RSQFSKLDKF
1010 1020 1030 1040 1050
SDVFRLLSVV SAMDYVPKEQ KEIFMKKNFL RGKLMEEIVK LRKQLMYIIK
1060 1070 1080 1090 1100
SNTSKENIAV VIRNEDLKSD IPSVIQIKLL KQMICAGFVD HVAVRADVLF
1110 1120 1130 1140 1150
PDDAKITNRT SIINIPYIPV LATRTPNIED CFVYIHPTSI LNNLGEMPPK
1160 1170 1180 1190 1200
YMLYYSLHLG GNNKTRMNTL CDIASTPLAN IARKGLLLTY SKPLTGQGLK
1210 1220 1230 1240 1250
TVNLSPTERY CYVVPRFGST VDNDLKIGWD LNPIAVHQKK QKGQWTVIKF
1260
ITRKGFQTIT GEEKEKK
Length:1,267
Mass (Da):144,955
Last modified:November 1, 1997 - v1
Checksum:i576DAAE6D934CC77
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z48622 Genomic DNA. Translation: CAA88553.1.
BK006946 Genomic DNA. Translation: DAA10025.1.
PIRiS53058.
RefSeqiNP_013847.1. NM_001182629.1.

Genome annotation databases

EnsemblFungiiYMR128W; YMR128W; YMR128W.
GeneIDi855158.
KEGGisce:YMR128W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z48622 Genomic DNA. Translation: CAA88553.1.
BK006946 Genomic DNA. Translation: DAA10025.1.
PIRiS53058.
RefSeqiNP_013847.1. NM_001182629.1.

3D structure databases

ProteinModelPortaliQ04217.
SMRiQ04217. Positions 383-642, 708-941.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35305. 64 interactions.
DIPiDIP-6722N.
IntActiQ04217. 29 interactions.
MINTiMINT-614026.

PTM databases

iPTMnetiQ04217.

Proteomic databases

MaxQBiQ04217.
PRIDEiQ04217.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYMR128W; YMR128W; YMR128W.
GeneIDi855158.
KEGGisce:YMR128W.

Organism-specific databases

EuPathDBiFungiDB:YMR128W.
SGDiS000004735. ECM16.

Phylogenomic databases

GeneTreeiENSGT00550000074985.
HOGENOMiHOG000201240.
InParanoidiQ04217.
KOiK14780.
OMAiYVFDCGR.
OrthoDBiEOG79PJXZ.

Enzyme and pathway databases

BioCyciYEAST:G3O-32821-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus.

Miscellaneous databases

PROiQ04217.

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR002464. DNA/RNA_helicase_DEAH_CS.
IPR011709. DUF1605.
IPR007502. Helicase-assoc_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF04408. HA2. 1 hit.
PF00271. Helicase_C. 1 hit.
PF07717. OB_NTP_bind. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00847. HA2. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
PROSITEiPS00690. DEAH_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "Dhr1p, a putative DEAH-Box RNA helicase, is associated with the box C+D snoRNP U3."
    Colley A., Beggs J.D., Tollervey D., Lafontaine D.L.J.
    Mol. Cell. Biol. 20:7238-7246(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH SNORNA U3, SUBCELLULAR LOCATION.
  4. Cited for: IDENTIFICATION IN SSU PROCESSOME BY MASS SPECTROMETRY.
  5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  6. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-181, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiDHR1_YEAST
AccessioniPrimary (citable) accession number: Q04217
Secondary accession number(s): D6VZV1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: July 6, 2016
This is version 149 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 2000 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XIII
    Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

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.