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Q06078

- UTP21_YEAST

UniProt

Q06078 - UTP21_YEAST

Protein

U3 small nucleolar RNA-associated protein 21

Gene

UTP21

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 136 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.1 Publication

    GO - Molecular functioni

    1. protein binding Source: IntAct

    GO - Biological processi

    1. ribosomal small subunit biogenesis Source: SGD
    2. rRNA processing Source: SGD

    Keywords - Molecular functioni

    Ribonucleoprotein

    Keywords - Biological processi

    Ribosome biogenesis, rRNA processing

    Enzyme and pathway databases

    BioCyciYEAST:G3O-32471-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    U3 small nucleolar RNA-associated protein 21
    Short name:
    U3 snoRNA-associated protein 21
    Alternative name(s):
    U three protein 21
    Gene namesi
    Name:UTP21
    Ordered Locus Names:YLR409C
    ORF Names:L8084.22
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XII

    Organism-specific databases

    CYGDiYLR409c.
    SGDiS000004401. UTP21.

    Subcellular locationi

    Nucleusnucleolus 2 Publications

    GO - Cellular componenti

    1. nucleolus Source: SGD
    2. Pwp2p-containing subcomplex of 90S preribosome Source: SGD
    3. small-subunit processome Source: SGD

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 939938U3 small nucleolar RNA-associated protein 21PRO_0000051480Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylserine1 Publication
    Modified residuei772 – 7721Phosphoserine1 Publication

    Keywords - PTMi

    Acetylation, Phosphoprotein

    Proteomic databases

    MaxQBiQ06078.
    PaxDbiQ06078.
    PeptideAtlasiQ06078.

    Expressioni

    Gene expression databases

    GenevestigatoriQ06078.

    Interactioni

    Subunit structurei

    Interacts with snoRNA U3. Interacts with MPP10. Interacts (via WD repeats) with UTP18. 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
    PWP2P256357EBI-359,EBI-14332
    UTP18P403626EBI-359,EBI-4534

    Protein-protein interaction databases

    BioGridi31666. 56 interactions.
    DIPiDIP-6416N.
    IntActiQ06078. 19 interactions.
    MINTiMINT-561636.
    STRINGi4932.YLR409C.

    Structurei

    Secondary structure

    1
    939
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi22 – 3110
    Beta strandi40 – 445
    Beta strandi47 – 537
    Beta strandi58 – 625
    Turni63 – 653
    Beta strandi68 – 714
    Beta strandi82 – 865
    Beta strandi89 – 946
    Beta strandi97 – 1026
    Beta strandi105 – 1117
    Beta strandi113 – 1164
    Beta strandi118 – 1247
    Beta strandi127 – 1326
    Beta strandi135 – 1417
    Beta strandi147 – 1493
    Beta strandi152 – 1587
    Turni161 – 1633
    Beta strandi165 – 1717
    Beta strandi179 – 1868
    Beta strandi188 – 1925
    Turni193 – 1953
    Beta strandi198 – 2014
    Beta strandi209 – 2146
    Beta strandi220 – 23415
    Turni235 – 2384
    Beta strandi239 – 2457
    Beta strandi251 – 2566
    Beta strandi259 – 2613
    Beta strandi263 – 2686
    Beta strandi273 – 2775
    Turni278 – 2814
    Beta strandi282 – 2876
    Helixi293 – 2953
    Beta strandi299 – 3035
    Beta strandi307 – 3137
    Beta strandi315 – 3239
    Beta strandi341 – 3477
    Beta strandi353 – 3586
    Beta strandi365 – 3706
    Beta strandi375 – 3795
    Beta strandi386 – 3883
    Beta strandi414 – 4196
    Turni422 – 4265
    Beta strandi430 – 4345
    Beta strandi438 – 4447
    Turni445 – 4484
    Beta strandi449 – 4568
    Beta strandi458 – 4603
    Beta strandi463 – 4686
    Beta strandi474 – 4796
    Beta strandi482 – 4887
    Turni489 – 4913
    Beta strandi494 – 4996
    Beta strandi505 – 5106
    Beta strandi516 – 5216
    Beta strandi524 – 53310
    Beta strandi536 – 5416
    Beta strandi546 – 5516
    Turni553 – 5553
    Beta strandi557 – 5626
    Beta strandi567 – 5715
    Turni572 – 5754
    Beta strandi576 – 5816
    Beta strandi588 – 5936
    Beta strandi597 – 6048
    Beta strandi607 – 6137
    Turni614 – 6163
    Beta strandi619 – 6246
    Beta strandi629 – 6346
    Beta strandi640 – 6478
    Beta strandi649 – 6568

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4HNXX-ray2.10A1-684[»]
    4NSXX-ray2.10A1-684[»]
    ProteinModelPortaliQ06078.
    SMRiQ06078. Positions 20-684.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati40 – 7132WD 11 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati81 – 11131WD 21 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati119 – 15840WD 31 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati168 – 20134WD 41 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati208 – 24538WD 51 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati252 – 28736WD 61 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati295 – 34753WD 71 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati354 – 38835WD 81 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati415 – 45440WD 91 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati463 – 49735WD 101 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati505 – 54137WD 111 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati546 – 58136WD 121 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati583 – 62442WD 131 PublicationPROSITE-ProRule annotationAdd
    BLAST
    Repeati626 – 66439WD 141 PublicationPROSITE-ProRule annotationAdd
    BLAST

    Domaini

    The WD repeats are grouped into two tandem seven-bladed beta-propeller regions.

    Sequence similaritiesi

    Contains 14 WD repeats.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat, WD repeat

    Phylogenomic databases

    eggNOGiCOG2319.
    GeneTreeiENSGT00390000004976.
    HOGENOMiHOG000217777.
    KOiK14554.
    OMAiHVPTRQI.
    OrthoDBiEOG7MSMX8.

    Family and domain databases

    Gene3Di2.130.10.10. 2 hits.
    InterProiIPR011047. Quinonprotein_ADH-like_supfam.
    IPR007319. SSU_processome_Utp21.
    IPR015943. WD40/YVTN_repeat-like_dom.
    IPR001680. WD40_repeat.
    IPR019775. WD40_repeat_CS.
    IPR017986. WD40_repeat_dom.
    [Graphical view]
    PfamiPF04192. Utp21. 1 hit.
    PF00400. WD40. 1 hit.
    [Graphical view]
    SMARTiSM00320. WD40. 9 hits.
    [Graphical view]
    SUPFAMiSSF50978. SSF50978. 1 hit.
    SSF50998. SSF50998. 2 hits.
    PROSITEiPS00678. WD_REPEATS_1. 1 hit.
    PS50082. WD_REPEATS_2. 1 hit.
    PS50294. WD_REPEATS_REGION. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    Q06078-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSIDLKKRKV EEDVRSRGKN SKIFSPFRII GNVSNGVPFA TGTLGSTFYI    50
    VTCVGKTFQI YDANTLHLLF VSEKETPSSI VALSAHFHYV YAAYENKVGI 100
    YKRGIEEHLL ELETDANVEH LCIFGDYLCA STDDNSIFIY KKSDPQDKYP 150
    SEFYTKLTVT EIQGGEIVSL QHLATYLNKL TVVTKSNVLL FNVRTGKLVF 200
    TSNEFPDQIT TAEPAPVLDI IALGTVTGEV IMFNMRKGKR IRTIKIPQSR 250
    ISSLSFRTDG SSHLSVGTSS GDLIFYDLDR RSRIHVLKNI HRESYGGVTQ 300
    ATFLNGQPII VTSGGDNSLK EYVFDPSLSQ GSGDVVVQPP RYLRSRGGHS 350
    QPPSYIAFAD SQSHFMLSAS KDRSLWSFSL RKDAQSQEMS QRLHKKQDGG 400
    RVGGSTIKSK FPEIVALAIE NARIGEWENI ITAHKDEKFA RTWDMRNKRV 450
    GRWTFDTTDD GFVKSVAMSQ CGNFGFIGSS NGSITIYNMQ SGILRKKYKL 500
    HKRAVTGISL DGMNRKMVSC GLDGIVGFYD FNKSTLLGKL KLDAPITAMV 550
    YHRSSDLFAL ALDDLSIVVI DAVTQRVVRQ LWGHSNRITA FDFSPEGRWI 600
    VSASLDSTIR TWDLPTGGCI DGIIVDNVAT NVKFSPNGDL LATTHVTGNG 650
    ICIWTNRAQF KTVSTRTIDE SEFARMALPS TSVRGNDSML SGALESNGGE 700
    DLNDIDFNTY TSLEQIDKEL LTLSIGPRSK MNTLLHLDVI RKRSKPKEAP 750
    KKSEKLPFFL QLSGEKVGDE ASVREGIAHE TPEEIHRRDQ EAQKKLDAEE 800
    QMNKFKVTGR LGFESHFTKQ LREGSQSKDY SSLLATLINF SPAAVDLEIR 850
    SLNSFEPFDE IVWFIDALTQ GLKSNKNFEL YETFMSLLFK AHGDVIHANN 900
    KNQDIASALQ NWEDVHKKED RLDDLVKFCM GVAAFVTTA 939
    Length:939
    Mass (Da):104,791
    Last modified:November 1, 1996 - v1
    Checksum:iF1F856EF28369351
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U19729 Genomic DNA. Translation: AAB82361.1.
    BK006945 Genomic DNA. Translation: DAA09709.1.
    PIRiS55965.
    RefSeqiNP_013513.3. NM_001182297.3.

    Genome annotation databases

    EnsemblFungiiYLR409C; YLR409C; YLR409C.
    GeneIDi851125.
    KEGGisce:YLR409C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U19729 Genomic DNA. Translation: AAB82361.1 .
    BK006945 Genomic DNA. Translation: DAA09709.1 .
    PIRi S55965.
    RefSeqi NP_013513.3. NM_001182297.3.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4HNX X-ray 2.10 A 1-684 [» ]
    4NSX X-ray 2.10 A 1-684 [» ]
    ProteinModelPortali Q06078.
    SMRi Q06078. Positions 20-684.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31666. 56 interactions.
    DIPi DIP-6416N.
    IntActi Q06078. 19 interactions.
    MINTi MINT-561636.
    STRINGi 4932.YLR409C.

    Proteomic databases

    MaxQBi Q06078.
    PaxDbi Q06078.
    PeptideAtlasi Q06078.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YLR409C ; YLR409C ; YLR409C .
    GeneIDi 851125.
    KEGGi sce:YLR409C.

    Organism-specific databases

    CYGDi YLR409c.
    SGDi S000004401. UTP21.

    Phylogenomic databases

    eggNOGi COG2319.
    GeneTreei ENSGT00390000004976.
    HOGENOMi HOG000217777.
    KOi K14554.
    OMAi HVPTRQI.
    OrthoDBi EOG7MSMX8.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-32471-MONOMER.

    Miscellaneous databases

    NextBioi 967857.
    PROi Q06078.

    Gene expression databases

    Genevestigatori Q06078.

    Family and domain databases

    Gene3Di 2.130.10.10. 2 hits.
    InterProi IPR011047. Quinonprotein_ADH-like_supfam.
    IPR007319. SSU_processome_Utp21.
    IPR015943. WD40/YVTN_repeat-like_dom.
    IPR001680. WD40_repeat.
    IPR019775. WD40_repeat_CS.
    IPR017986. WD40_repeat_dom.
    [Graphical view ]
    Pfami PF04192. Utp21. 1 hit.
    PF00400. WD40. 1 hit.
    [Graphical view ]
    SMARTi SM00320. WD40. 9 hits.
    [Graphical view ]
    SUPFAMi SSF50978. SSF50978. 1 hit.
    SSF50998. SSF50998. 2 hits.
    PROSITEi PS00678. WD_REPEATS_1. 1 hit.
    PS50082. WD_REPEATS_2. 1 hit.
    PS50294. WD_REPEATS_REGION. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
      Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
      , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
      Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    2. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    3. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    5. "The small-subunit processome is a ribosome assembly intermediate."
      Bernstein K.A., Gallagher J.E.G., Mitchell B.M., Granneman S., Baserga S.J.
      Eukaryot. Cell 3:1619-1626(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH MPP10 AND SNORNA U3, IDENTIFICATION IN SSU PROCESSOME, SUBCELLULAR LOCATION.
    6. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
      Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
      Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-772, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    7. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].
    8. "Structure of Utp21 tandem WD domain provides insight into the organization of the UTPB complex involved in ribosome synthesis."
      Zhang C., Lin J., Liu W., Chen X., Chen R., Ye K.
      PLoS ONE 9:E86540-E86540(2014) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 1-684, SUBUNIT, WD REPEATS.

    Entry informationi

    Entry nameiUTP21_YEAST
    AccessioniPrimary (citable) accession number: Q06078
    Secondary accession number(s): D6VZ43
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 14, 2001
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 136 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 2020 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

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

    External Data

    Dasty 3