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P15646

- FBRL_YEAST

UniProt

P15646 - FBRL_YEAST

Protein

rRNA 2'-O-methyltransferase fibrillarin

Gene

NOP1

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 139 (01 Oct 2014)
      Sequence version 1 (01 Apr 1990)
      Previous versions | rss
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    Functioni

    S-adenosyl-L-methionine-dependent methyltransferase that has the ability to methylate both RNAs and proteins. Involved in pre-rRNA processing by catalyzing the site-specific 2'-hydroxyl methylation of ribose moieties in pre-ribosomal RNA (PubMed:1825809). Site specificity is provided by a guide RNA that base pairs with the substrate. Methylation occurs at a characteristic distance from the sequence involved in base pairing with the guide RNA. Involved in the biogenesis of the 18S rRNA. Also acts as a protein methyltransferase by mediating methylation of 'Gln-105' of histone H2A (H2AQ105me), a modification that impairs binding of the FACT complex and is specifically present at 35S ribosomal DNA locus (PubMed:24352239).3 Publications

    Catalytic activityi

    S-adenosyl-L-methionine + L-glutamine-[histone] = S-adenosyl-L-homocysteine + N(5)-methyl-L-glutamine-[histone].1 Publication

    GO - Molecular functioni

    1. histone-glutamine methyltransferase activity Source: UniProtKB
    2. protein binding Source: IntAct
    3. RNA binding Source: UniProtKB-KW
    4. rRNA methyltransferase activity Source: SGD

    GO - Biological processi

    1. box C/D snoRNA 3'-end processing Source: SGD
    2. histone glutamine methylation Source: SGD
    3. regulation of transcription from RNA polymerase I promoter Source: UniProtKB
    4. rRNA methylation Source: SGD
    5. rRNA processing Source: SGD
    6. snoRNA processing Source: SGD
    7. tRNA processing Source: InterPro

    Keywords - Molecular functioni

    Methyltransferase, Ribonucleoprotein, Transferase

    Keywords - Biological processi

    Ribosome biogenesis, rRNA processing

    Keywords - Ligandi

    RNA-binding, S-adenosyl-L-methionine

    Enzyme and pathway databases

    BioCyciYEAST:G3O-29444-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    rRNA 2'-O-methyltransferase fibrillarin (EC:2.1.1.-)
    Alternative name(s):
    Histone-glutamine methyltransferase
    U3 small nucleolar RNA-associated protein NOP1
    Short name:
    Nucleolar protein 1
    Short name:
    U3 snoRNA-associated protein NOP1
    Gene namesi
    Name:NOP1
    Synonyms:LOT3
    Ordered Locus Names:YDL014W
    ORF Names:D2870
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome IV

    Organism-specific databases

    CYGDiYDL014w.
    SGDiS000002172. NOP1.

    Subcellular locationi

    Nucleusnucleolus 3 Publications
    Note: Fibrillar region of the nucleolus.

    GO - Cellular componenti

    1. box C/D snoRNP complex Source: SGD
    2. nucleolus Source: SGD
    3. small-subunit processome Source: SGD

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi87 – 871V → D in nop1.3; thermosensitive allele showing a decrease in histone-glutamine N-methyltransferase activity upon shift to restrictive temperature; when associated with G-103; V-175 and S-219. 1 Publication
    Mutagenesisi103 – 1031E → G in nop1.3; thermosensitive allele showing a decrease in histone-glutamine N-methyltransferase activity upon shift to restrictive temperature; when associated with D-87; V-175 and S-219. 1 Publication
    Mutagenesisi175 – 1751A → V in nop1.3; thermosensitive allele showing a decrease in histone-glutamine N-methyltransferase activity upon shift to restrictive temperature; when associated with D-87; G-103 and S-219. 1 Publication
    Mutagenesisi219 – 2191P → S in nop1.3; thermosensitive allele showing a decrease in histone-glutamine N-methyltransferase activity upon shift to restrictive temperature; when associated with D-87; G-103 and V-175. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 327327rRNA 2'-O-methyltransferase fibrillarinPRO_0000148527Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei8 – 81Asymmetric dimethylarginine1 Publication
    Modified residuei12 – 121Asymmetric dimethylarginine1 Publication
    Modified residuei16 – 161Asymmetric dimethylarginine1 Publication
    Modified residuei22 – 221Asymmetric dimethylarginine1 Publication
    Modified residuei26 – 261Asymmetric dimethylarginine1 Publication
    Modified residuei30 – 301Asymmetric dimethylarginine1 Publication
    Modified residuei34 – 341Asymmetric dimethylarginine1 Publication
    Modified residuei40 – 401Asymmetric dimethylarginine1 Publication
    Modified residuei44 – 441Asymmetric dimethylarginine1 Publication
    Modified residuei48 – 481Asymmetric dimethylarginine1 Publication
    Modified residuei52 – 521Asymmetric dimethylarginine1 Publication
    Modified residuei58 – 581Asymmetric dimethylarginine1 Publication
    Modified residuei62 – 621Asymmetric dimethylarginine1 Publication
    Modified residuei66 – 661Asymmetric dimethylarginine1 Publication
    Modified residuei70 – 701Asymmetric dimethylarginine1 Publication
    Modified residuei73 – 731Asymmetric dimethylarginine1 Publication
    Modified residuei81 – 811Asymmetric dimethylarginine1 Publication

    Post-translational modificationi

    Methylated by HMT1, forming asymmetric dimethylarginines (DMA) within a domain referred to as an RGG box, made up of repeated Gly-Gly dipeptides interspersed with Arg and aromatic residues.1 Publication

    Keywords - PTMi

    Methylation

    Proteomic databases

    MaxQBiP15646.
    PaxDbiP15646.
    PeptideAtlasiP15646.

    Expressioni

    Gene expression databases

    GenevestigatoriP15646.

    Interactioni

    Subunit structurei

    Component of box C/D small nucleolar ribonucleoprotein (snoRNP) particles that contain SNU13, NOP1, SIK1/NOP56 and NOP58, plus a guide RNA. Interacts with snoRNA U3. Interacts with MPP10, NOP58, SIK1 and SOF1. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.4 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    NOP58Q124994EBI-6838,EBI-12126

    Protein-protein interaction databases

    BioGridi32040. 290 interactions.
    DIPiDIP-698N.
    IntActiP15646. 44 interactions.
    MINTiMINT-382637.
    STRINGi4932.YDL014W.

    Structurei

    3D structure databases

    ProteinModelPortaliP15646.
    SMRiP15646. Positions 87-320.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni8 – 8376RGG-boxAdd
    BLAST
    Regioni22 – 4221RNA-binding RGG-boxBy similarityAdd
    BLAST
    Regioni58 – 7518RNA-binding RGG-boxBy similarityAdd
    BLAST
    Regioni179 – 1802S-adenosyl-L-methionine bindingBy similarity
    Regioni198 – 1992S-adenosyl-L-methionine bindingBy similarity
    Regioni223 – 2242S-adenosyl-L-methionine bindingBy similarity
    Regioni243 – 2464S-adenosyl-L-methionine bindingBy similarity
    Regioni281 – 31333HelicalSequence AnalysisAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi6 – 8378DMA/Gly-richAdd
    BLAST

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG1889.
    GeneTreeiENSGT00550000074792.
    HOGENOMiHOG000106741.
    KOiK14563.
    OMAiGEKRMSV.
    OrthoDBiEOG7FNCK0.

    Family and domain databases

    Gene3Di3.40.50.150. 1 hit.
    HAMAPiMF_00351. RNA_methyltransf_FlpA.
    InterProiIPR000692. Fibrillarin.
    IPR020813. Fibrillarin_CS.
    IPR029063. SAM-dependent_MTases-like.
    [Graphical view]
    PfamiPF01269. Fibrillarin. 1 hit.
    [Graphical view]
    PIRSFiPIRSF006540. Nop17p. 1 hit.
    PRINTSiPR00052. FIBRILLARIN.
    SUPFAMiSSF53335. SSF53335. 1 hit.
    PROSITEiPS00566. FIBRILLARIN. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P15646-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSFRPGSRGG SRGGSRGGFG GRGGSRGGAR GGSRGGFGGR GGSRGGARGG    50
    SRGGFGGRGG SRGGARGGSR GGRGGAAGGA RGGAKVVIEP HRHAGVYIAR 100
    GKEDLLVTKN MAPGESVYGE KRISVEEPSK EDGVPPTKVE YRVWNPFRSK 150
    LAAGIMGGLD ELFIAPGKKV LYLGAASGTS VSHVSDVVGP EGVVYAVEFS 200
    HRPGRELISM AKKRPNIIPI IEDARHPQKY RMLIGMVDCV FADVAQPDQA 250
    RIIALNSHMF LKDQGGVVIS IKANCIDSTV DAETVFAREV QKLREERIKP 300
    LEQLTLEPYE RDHCIVVGRY MRSGLKK 327
    Length:327
    Mass (Da):34,465
    Last modified:April 1, 1990 - v1
    Checksum:i56A8B958A7B6066E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J05230 Genomic DNA. Translation: AAA34816.1.
    Z48432 Genomic DNA. Translation: CAA88345.1.
    Z74061 Genomic DNA. Translation: CAA98571.1.
    Z74062 Genomic DNA. Translation: CAA98572.1.
    BK006938 Genomic DNA. Translation: DAA11835.1.
    PIRiS25421.
    RefSeqiNP_010270.1. NM_001180073.1.

    Genome annotation databases

    EnsemblFungiiYDL014W; YDL014W; YDL014W.
    GeneIDi851548.
    KEGGisce:YDL014W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J05230 Genomic DNA. Translation: AAA34816.1 .
    Z48432 Genomic DNA. Translation: CAA88345.1 .
    Z74061 Genomic DNA. Translation: CAA98571.1 .
    Z74062 Genomic DNA. Translation: CAA98572.1 .
    BK006938 Genomic DNA. Translation: DAA11835.1 .
    PIRi S25421.
    RefSeqi NP_010270.1. NM_001180073.1.

    3D structure databases

    ProteinModelPortali P15646.
    SMRi P15646. Positions 87-320.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 32040. 290 interactions.
    DIPi DIP-698N.
    IntActi P15646. 44 interactions.
    MINTi MINT-382637.
    STRINGi 4932.YDL014W.

    Proteomic databases

    MaxQBi P15646.
    PaxDbi P15646.
    PeptideAtlasi P15646.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YDL014W ; YDL014W ; YDL014W .
    GeneIDi 851548.
    KEGGi sce:YDL014W.

    Organism-specific databases

    CYGDi YDL014w.
    SGDi S000002172. NOP1.

    Phylogenomic databases

    eggNOGi COG1889.
    GeneTreei ENSGT00550000074792.
    HOGENOMi HOG000106741.
    KOi K14563.
    OMAi GEKRMSV.
    OrthoDBi EOG7FNCK0.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-29444-MONOMER.

    Miscellaneous databases

    NextBioi 968964.
    PROi P15646.

    Gene expression databases

    Genevestigatori P15646.

    Family and domain databases

    Gene3Di 3.40.50.150. 1 hit.
    HAMAPi MF_00351. RNA_methyltransf_FlpA.
    InterProi IPR000692. Fibrillarin.
    IPR020813. Fibrillarin_CS.
    IPR029063. SAM-dependent_MTases-like.
    [Graphical view ]
    Pfami PF01269. Fibrillarin. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF006540. Nop17p. 1 hit.
    PRINTSi PR00052. FIBRILLARIN.
    SUPFAMi SSF53335. SSF53335. 1 hit.
    PROSITEi PS00566. FIBRILLARIN. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "A yeast nucleolar protein related to mammalian fibrillarin is associated with small nucleolar RNA and is essential for viability."
      Schimmang T., Tollervey D., Kern H., Frank R., Hurt E.C.
      EMBO J. 8:4015-4024(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 264-270 AND 298-310, FUNCTION, INTERACTION WITH SNORNAS, SUBCELLULAR LOCATION.
    2. "Isolation and sequencing of NOP1. A yeast gene encoding a nucleolar protein homologous to a human autoimmune antigen."
      Henriquez R., Blobel G., Aris J.P.
      J. Biol. Chem. 265:2209-2215(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 112-142; 157-181 AND 211-231, SUBCELLULAR LOCATION.
    3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
      Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
      , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
      Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    5. "The small nucleolar RNP protein NOP1 (fibrillarin) is required for pre-rRNA processing in yeast."
      Tollervey D., Lehtonen H., Carmo-Fonseca M., Hurt E.C.
      EMBO J. 10:573-583(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    6. "A U3 snoRNP protein with homology to splicing factor PRP4 and G beta domains is required for ribosomal RNA processing."
      Jansen R., Tollervey D., Hurt E.C.
      EMBO J. 12:2549-2558(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH SOF1.
    7. "Nucleolar KKE/D repeat proteins Nop56p and Nop58p interact with Nop1p and are required for ribosome biogenesis."
      Gautier T., Berges T., Tollervey D., Hurt E.
      Mol. Cell. Biol. 17:7088-7098(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH SIK1 AND NOP58.
    8. Cited for: INTERACTION WITH MPP10 AND SNORNA U3, IDENTIFICATION IN SSU PROCESSOME BY MASS SPECTROMETRY.
    9. "In vivo analysis of nucleolar proteins modified by the yeast arginine methyltransferase Hmt1/Rmt1p."
      Xu C., Henry P.A., Setya A., Henry M.F.
      RNA 9:746-759(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION, METHYLATION BY HMT1.
    10. "Sites of ubiquitin attachment in Saccharomyces cerevisiae."
      Starita L.M., Lo R.S., Eng J.K., von Haller P.D., Fields S.
      Proteomics 12:236-240(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    11. "Glutamine methylation in histone H2A is an RNA-polymerase-I-dedicated modification."
      Tessarz P., Santos-Rosa H., Robson S.C., Sylvestersen K.B., Nelson C.J., Nielsen M.L., Kouzarides T.
      Nature 505:564-568(2014) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, CATALYTIC ACTIVITY, MUTAGENESIS OF VAL-87; GLU-103; ALA-175 AND PRO-219.

    Entry informationi

    Entry nameiFBRL_YEAST
    AccessioniPrimary (citable) accession number: P15646
    Secondary accession number(s): D6VRX5, P89890
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1990
    Last sequence update: April 1, 1990
    Last modified: October 1, 2014
    This is version 139 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, 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 IV
      Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

    External Data

    Dasty 3