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Protein

ATP-dependent RNA helicase HCA4

Gene

HCA4

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

Functioni

ATP-dependent RNA helicase required for ribosome biogenesis. Involved in the release of U14 snoRNA in pre-ribosomal complexes. Required for pre-rRNA cleavage at site A2.4 Publications

Miscellaneous

Present with 7900 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

ATP + H2O = ADP + phosphate.

Kineticsi

  1. KM=0.24 mM for ATP1 Publication

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi85 – 92ATP8

    GO - Molecular functioni

    • ATP binding Source: UniProtKB-KW
    • ATP-dependent RNA helicase activity Source: SGD
    • box C/D snoRNA binding Source: SGD
    • identical protein binding Source: IntAct
    • RNA-dependent ATPase activity Source: SGD
    • U3 snoRNA binding Source: SGD

    GO - Biological processi

    • RNA secondary structure unwinding Source: GO_Central
    • rRNA processing Source: SGD

    Keywordsi

    Molecular functionHelicase, Hydrolase, RNA-binding
    Biological processRibosome biogenesis, rRNA processing
    LigandATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-31500-MONOMER

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    ATP-dependent RNA helicase HCA4 (EC:3.6.4.13)
    Alternative name(s):
    DEAD box protein 4
    Helicase CA4
    Helicase UF1
    Gene namesi
    Name:HCA4
    Synonyms:DBP4, ECM24
    Ordered Locus Names:YJL033W
    ORF Names:J1250
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    Proteomesi
    • UP000002311 Componenti: Chromosome X

    Organism-specific databases

    EuPathDBiFungiDB:YJL033W
    SGDiS000003570 HCA4

    Subcellular locationi

    Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi91K → A or R: Lethal and prevents release of U14 snoRNA from pre-ribosomes. 1 Publication1
    Mutagenesisi225S → A: Lethal and prevents release of U14 snoRNA from pre-ribosomes; when associated with A-227. 1 Publication1
    Mutagenesisi227T → A: Lethal and prevents release of U14 snoRNA from pre-ribosomes; when associated with A-225. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00000550181 – 770ATP-dependent RNA helicase HCA4Add BLAST770

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Modified residuei692PhosphoserineCombined sources1
    Modified residuei710PhosphoserineCombined sources1
    Modified residuei714PhosphoserineCombined sources1
    Modified residuei743PhosphoserineCombined sources1

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiP20448
    PaxDbiP20448
    PRIDEiP20448

    PTM databases

    iPTMnetiP20448

    Interactioni

    Subunit structurei

    Interacts with the U3 and U14 snoRNAs. Associates with pre-ribosomal complexes.1 Publication

    Binary interactionsi

    Show more details

    GO - Molecular functioni

    • identical protein binding Source: IntAct

    Protein-protein interaction databases

    BioGridi33727, 179 interactors
    DIPiDIP-6819N
    IntActiP20448, 109 interactors
    MINTiP20448
    STRINGi4932.YJL033W

    Structurei

    3D structure databases

    ProteinModelPortaliP20448
    SMRiP20448
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini72 – 246Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST175
    Domaini278 – 437Helicase C-terminalPROSITE-ProRule annotationAdd BLAST160

    Motif

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Motifi41 – 69Q motifAdd BLAST29
    Motifi194 – 197DEAD box4

    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

    Phylogenomic databases

    GeneTreeiENSGT00550000074980
    HOGENOMiHOG000268801
    InParanoidiP20448
    KOiK14776
    OMAiLYRRKWG
    OrthoDBiEOG092C1VLP

    Family and domain databases

    CDDicd00079 HELICc, 1 hit
    InterProiView protein in InterPro
    IPR011545 DEAD/DEAH_box_helicase_dom
    IPR025313 DUF4217
    IPR014001 Helicase_ATP-bd
    IPR001650 Helicase_C
    IPR027417 P-loop_NTPase
    IPR000629 RNA-helicase_DEAD-box_CS
    IPR014014 RNA_helicase_DEAD_Q_motif
    PfamiView protein in Pfam
    PF00270 DEAD, 1 hit
    PF13959 DUF4217, 1 hit
    PF00271 Helicase_C, 1 hit
    SMARTiView protein in SMART
    SM00487 DEXDc, 1 hit
    SM01178 DUF4217, 1 hit
    SM00490 HELICc, 1 hit
    SUPFAMiSSF52540 SSF52540, 1 hit
    PROSITEiView protein in PROSITE
    PS00039 DEAD_ATP_HELICASE, 1 hit
    PS51192 HELICASE_ATP_BIND_1, 1 hit
    PS51194 HELICASE_CTER, 1 hit
    PS51195 Q_MOTIF, 1 hit

    Sequencei

    Sequence statusi: Complete.

    P20448-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MAKKNRLNTT QRKTLRQKED EYIENLKTKI DEYDPKITKA KFFKDLPISD
    60 70 80 90 100
    PTLKGLRESS FIKLTEIQAD SIPVSLQGHD VLAAAKTGSG KTLAFLVPVI
    110 120 130 140 150
    EKLYREKWTE FDGLGALIIS PTRELAMQIY EVLTKIGSHT SFSAGLVIGG
    160 170 180 190 200
    KDVKFELERI SRINILIGTP GRILQHLDQA VGLNTSNLQM LVLDEADRCL
    210 220 230 240 250
    DMGFKKTLDA IVSTLSPSRQ TLLFSATQSQ SVADLARLSL TDYKTVGTHD
    260 270 280 290 300
    VMDGSVNKEA STPETLQQFY IEVPLADKLD ILFSFIKSHL KCKMIVFLSS
    310 320 330 340 350
    SKQVHFVYET FRKMQPGISL MHLHGRQKQR ARTETLDKFN RAQQVCLFAT
    360 370 380 390 400
    DVVARGIDFP AVDWVVQVDC PEDVDTYIHR VGRCARYGKK GKSLIMLTPQ
    410 420 430 440 450
    EQEAFLKRLN ARKIEPGKLN IKQSKKKSIK PQLQSLLFKD PELKYLGQKA
    460 470 480 490 500
    FISYVRSIYV QKDKQVFKFD ELPTEEFAYS LGLPGAPKIK MKGMKTIEQA
    510 520 530 540 550
    KERKNAPRQL AFLSKANEDG EVIEDKSKQP RTKYDKMFER KNQTILSEHY
    560 570 580 590 600
    LNITKAQAQE DEDDDFISVK RKDHEINEAE LPALTLPTSR RAQKKALSKK
    610 620 630 640 650
    ASLASKGNAS KLIFDDEGEA HPVYELEDEE EFHKRGDAEV QKTEFLTKES
    660 670 680 690 700
    AVMADIDNID KQVAKEKKQE KKRKRLEAMR REMEAAMEEE ISGDEEEGKT
    710 720 730 740 750
    VAYLGTGNLS DDMSDGDMPD SEGHLKKKAR TVDYSHGHNP SNSVDDDIIE
    760 770
    VEEPQTLEDL ESLTAKLIQG
    Length:770
    Mass (Da):87,193
    Last modified:November 1, 1995 - v2
    Checksum:i0C9E4DEF5BFD640E
    GO

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti36K → R in AAT93137 (PubMed:17322287).Curated1
    Sequence conflicti381V → I no nucleotide entry (PubMed:2406722).Curated1
    Sequence conflicti465Q → E in AAB17005 (PubMed:9199348).Curated1
    Sequence conflicti512F → L in AAB17005 (PubMed:9199348).Curated1
    Sequence conflicti668 – 673KQEKKR → NKRRRG in AAB17005 (PubMed:9199348).Curated6
    Sequence conflicti675R → D in AAB17005 (PubMed:9199348).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U72149 Genomic DNA Translation: AAB17005.1
    Z49308 Genomic DNA Translation: CAA89324.1
    AY693118 Genomic DNA Translation: AAT93137.1
    BK006943 Genomic DNA Translation: DAA08766.1
    PIRiS56805
    RefSeqiNP_012501.1, NM_001181467.1

    Genome annotation databases

    EnsemblFungiiYJL033W; YJL033W; YJL033W
    GeneIDi853419
    KEGGisce:YJL033W

    Similar proteinsi

    Entry informationi

    Entry nameiDBP4_YEAST
    AccessioniPrimary (citable) accession number: P20448
    Secondary accession number(s): D6VWF0, Q6B1G2, Q92329
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1991
    Last sequence update: November 1, 1995
    Last modified: April 25, 2018
    This is version 172 of the entry and version 2 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome
    UniProt is an ELIXIR core data resource
    Main funding by: National Institutes of Health