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Protein Overview: URB1

General Information:
Name(s) found: URB1 / YKL014C [SGD]
Description(s) found:
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  • gi|6322838|ref|NP_012911.1| Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit; Urb1p [Saccharomyces cerevi [NCBI NR]
  • gi|549659|sp|P34241.2|URB1_YEAST RecName: Full=Nucleolar pre-ribosomal-associated protein 1; AltName: Full=Unhealthy ribosome biogenesis protein 1 [NCBI NR]
  • pir||S37827 hypothetical protein YKL014c - yeast (Saccharomyces cerevisiae) [NCBI NR]
  • gi|486001|emb|CAA81849.1| unnamed protein product [Saccharomyces cerevisiae] [NCBI NR]
  • gi|450364|emb|CAA52264.1| unnamed protein product [Saccharomyces cerevisiae] [NCBI NR]
  • (P34241) Hypothetical 203.3 kDa protein in PUT3-ARC19 intergenic region [Swiss-Prot]
  • Nucleolar pre-ribosomal-associated protein 1 OS=Saccharomyces cerevisiae GN=URB1 PE=1 SV=2 [Swiss-Prot]
  • URB1 Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs [mips]
  • Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit [SGD]
  • YKL014C, Chr XI from 411257-416551, reverse complement [yeast_orfs2]
  • Chr XI from 411257-416551, reverse complement [yeastorf3.fasta]
  • Chr XI from 416551-411257, reverse complement [yeastorf5.fasta]
  • URB1 SGDID:S0001497, Chr XI from 416556-411262, reverse complement, Uncharacterized ORF [yeastflysequest.fasta]
  • URB1 SGDID:S0001497, Chr XI from 416556-411262, reverse complement, Verified ORF [10112005cervSGD.fasta]
  • Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit [Saccharomyces cerevisiae]gi|486001|emb|CAA81849.1| unn [nrdb_11152004_Chlamydomonas]
  • URB1 SGDID:S000001497, Chr XI from 416556-411262, reverse complement, Verified ORF, "Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta]
  • Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit; Urb1p [Saccharomyces cerevisiae] [nr-271106-contam.fasta]
  • Hypothetical 203.3 kDa protein in PUT3-ARC19 intergenic region [nr-271106-contam.fasta]
  • unnamed protein product [Saccharomyces cerevisiae] [nr-271106-contam.fasta]
  • URB1 SGDID:S000001497, Chr XI from 416556-411262, reverse complement, Verified ORF, "Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit" [yeast-bovrabprots.fasta]
  • [chemostatdb.fasta]
  • Nucleolar pre-ribosomal-associated protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=URB1 PE=1 SV=2 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta]
  • URB1 SGDID:S000001497, Chr XI from 416913-411619, Genome Release 64-1-1, reverse complement, Verified ORF, "Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit" [yeast-030211-contam.fasta]
  • URB1 SGDID:S000001497, Chr XI from 416913-411619, Genome Release 64-2-1, reverse complement, Verified ORF, "Protein required for the normal accumulation of 25S and 5.8S rRNAs; nucleolar protein; associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit" [20141208_orf_trans.fasta]
  • YKL014C SGDID:S000001497, Chr XI from 416913-411619, Genome Release 64-1-1, reverse complement, Verified ORF, "Nucleolar protein required for the normal accumulation of 25S and 5.8S rRNAs, associated with the 27SA2 pre-ribosomal particle; proposed to be involved in the biogenesis of the 60S ribosomal subunit" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
    • Organism: Saccharomyces cerevisiae
    Length: 1764 amino acids

    Gene Ontology:
    Cellular Component: nucleolus [IDALink to PubMed articleLink to PubMed article]
    Biological Process: rRNA processing [IMPLink to PubMed article]
    processing of 27S pre-rRNA [IGILink to PubMed article][IMPLink to PubMed article]
    Molecular Function: molecular_function [ND]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNHSEAYGS RDQRREKYTQ GKEFEDGTLE TLESIISAVE DETLSKDYQP LIVFFQRGFG  60
   61 AQLVQTWSYY AQVNNHGKFS KTTSLLTKTL RVLSSDTSTV TIGSGLIRLI LTDYTKVLYR 120
  121 GLNNMRAQLT NPILRLLKQI VNFNNGQHIE ELVSYFDFSL PILPRLLVPS KSELANGNSS 180
  181 ADSSKHDSLR FTFIKFWLTL ISNASPFVRK ELLTENFKIM SNLFKFMNKA DSDKLSEHIL 240
  241 SVFINDILKE KSFKRTTKTK ILNELAASKI HHFYYSSNKN LVKKANEFFL TFGASRDFSV 300
  301 AFPDNCVWFK NSVADGASHG APITVNQVEF QIHNKLLFNT LRLFKPWEDT LQLGTLIKIL 360
  361 ENVPELVAPY SIFLTTNGNY DPKMTSYWFG ITLLINKIIN LKIPQFMEKV DSNIPPATSL 420
  421 VIENILPSLL TKSSLVKSLQ FETPIIRQLA CQSIVLALKK LEKVSTFYDQ KGWRNEKTIL 480
  481 LNEFHTRIPD LPIFVSTLSN SLASNKDNRI LPLSISIIFN YYSKMFPNLF SINLPSSNIY 540
  541 TDIMQKSKIS GIEFAILDNY LQFQEFNSTQ TRWWNPSSGG NSLFTLLLKL ASSKNASNVI 600
  601 TTRISNLLDE LTRTNVIFNI SLISPVMALV NSLQGLSLQV SEIDNMEQVW KWFDETISRV 660
  661 VKTPYKYVDM AKEYNYISPF IMCLSEQWKY VDKSGNPEFL IKWLILFLRN MIFIGEDHIG 720
  721 IDKLVKNVFP EVSDHDVNIY LKLDSFEENI KKTNSSNSLI SSMKSSSFFQ YISALPSKNL 780
  781 MNISRLPVNK LDAAGILFRV QLLVEDDSVV YDNWFEATAC ELTGKIASYM VTDTEFPIIK 840
  841 VLERYINFAL PKLAIEKRNA LLMKKSRFMC NLIGAVCFET GHQLVEFREI IQKVVFSGEN 900
  901 VEEYANYNEL YQKEDVNAFL TSVSEYLSTS ALTSLLMCST KLESTRNILQ KLFNEGKTIK 960
  961 ISLVKNILNK AANEDPASIK EVNISLAKFF EENKVCVDAS SDPMGKLSLS ETTSLINSFV1020
 1021 SSDLNYLVLK AFYRWEHFSF PSFIPSIWRI KDSPLLSIVT TAALFKHMQD KDFSAFAHET1080
 1081 ISKYGNEIAK STYTTSKSEI FDEILNMITT YIDFYDETKR NEILKCVLSQ SDHKYHAATV1140
 1141 RYIAAHNNFT YPGVETWLHK TLLYLTKYLS ERKVISNSFF ELLRAMAELL KLEEVPNKLN1200
 1201 VKIINSQLEA ILGSEWIKQI KVLEYVIVLI FCVSKKSIQS QRMVQLLLSN DSYSSIMIKD1260
 1261 NDEDSSYRKF LSTMILFSLF SIDPVVNSTP IVQEKLLTFY SGTISSNDKL ILKILETIES1320
 1321 HTATSWTNMI FSWEFIKDEE EEILEAIGDT RLITKEREGL ILTLQKNMIK KSIDRYVLER1380
 1381 PQVPELYTDS NTNNYDATTR CDLVKKYYDD TERSGVDMYD PLFLLLLIIH NKELVKMVKD1440
 1441 DEGNVTYRYE FENFLDCKIF QFIICSLSDC HTVANISYEH LSNLASSLEK KTAQMNLEKQ1500
 1501 ITSKDNERKE SDSDLIKYNS IYQVLIKRIL YQRQQNQDPI NPLIWFSISR IVDLLGSPTA1560
 1561 PLHEKAYRWV LSNSTIRSWD IPMVSDVMMS YNKRQQDDNK KEIDMEIYYG ELSWVLTTIC1620
 1621 KGIKTDEDYK MLEKKGVFEW LLNLINMPYL KERLRELIYF IFYKVQRVAD DGGLNLISRN1680
 1681 GIVSFFEVLN NNIKSRLPQD DILNNIGTLR NENRGTLNTT LRLAQEQNGI EKLLLGYNEL1740
 1741 VKSQKRLILW TEGDSDNVVK RLRK

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) CBF5 CIC1 DBP10 DBP9 DRS1 ERB1 HAS1 MAK21 MAK5 NIP7 NOC2 NOG1 NOP2 NOP4 NOP8 PUF6 RLP7 RPF1 RRP12 SSF1 URB1 URB2 UTP10 YTM1
    View Details Krogan NJ, et al. (2006) RRP14 RRP15 SSF1 SSF2 URB1
    View Details Gavin AC, et al. (2006) NOP8 URB1 URB2
    View Details Gavin AC, et al. (2002) AAR2 ARX1 BEM2 BMS1 BRX1 BUD20 CBF5 CIC1 CLU1 CYR1 CYS4 DBP10 DBP9 DCP2 DRS1 EBP2 ERB1 FPR4 FUN12 GAR1 GCN1 HAS1 HDA1 HER1 HIS3 INP2 IPI1 IPI3 KRE33 KRR1 LHP1 LOC1 LSG1 MAK21 MAK5 MDN1 MIS1 MRP7 MRT4 NAP1 NHP2 NIP1 NIP7 NMD3 NOC2 NOC3 NOG1 NOG2 NOP1 NOP12 NOP15 NOP16 NOP2 NOP4 NOP56 NOP6 NOP7 NSA1 NSA2 NUG1 POL2 PRP4 PRT1 PUF6 REI1 RIX1 RIX7 RLP24 RLP7 RPA135 RPA190 RPF1 RPF2 RPG1 RPP2B RPT6 RRP1 RRP12 RSA3 RSA4 RTR1 SDA1 SEC7 SKI2 SMB1 SNU114 SNU13 SNU66 SPB1 SPB4 SRO9 SSF1 TIF4631 TIF4632 TIF6 TUB3 URB1 UTP10 UTP20 UTP21 UTP22 YGL036W YMR310C YTM1
    View Details Ho Y, et al. (2002) BMS1 CBF5 CBP2 CCM1 CDC33 CDC53 CIC1 COF1 CTF4 DBP10 DBP7 DED81 DIA2 ENP1 ENP2 EST1 FPR3 GBP2 HAS1 HMO1 HSH49 HTB2 ILS1 IMD1 IMD3 ISA1 KRE33 KRI1 LST4 MCM2 MCM3 MCM5 MGM101 MRM1 MSS116 NIP7 NMD3 NOC2 NOP12 NOP6 NPL3 PDI1 PET127 POL5 PRP43 PUF6 PWP1 RLI1 RPF2 RRP1 RRP12 RRP5 SEH1 SKP1 SLT2 SPB1 SSF1 SSF2 SSZ1 TIF4631 TIF6 TRA1 TSR1 URB1 URB2 UTP10 UTP20 YAK1 YBL104C YER077C YPP1 YRA1 YTM1
    View Details Qiu et al. (2008) GAR1 URB1 UTP9

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run YNL260C No Comments Hazbun TR, et al. (2003)
    View Run PAN1 No Comments Toshima J, et al (2006)
    View Run RPA135 No Comments Schneider, DA, et al. (2006)
    View Run MLP2 #32 Asynchronous Prep-No Phosphopeptide enrichment Keck JM, et al. (2011)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    NOT SHOWING SINGLE HITS. [ Show Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

      BAIT PREY HITS PUBLICATION
    View Screen CDC28 URB1 2 Unpublished Fields Lab Data

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data URB1 and NOP56 Huh WK, et al. (2003)
    View Data URB1 Huh WK, et al. (2003)

    Protein Structure Data


    [What does the above image mean?]
    [View Top Sequence Alignments] [Show Ginzu Version Information]

    Domains predicted:

    #   Region(s) Method Confidence Match Description
    1 View Details [1..230] Pcons 2.59 Constant regulatory domain of protein phosphatase 2a, pr65alpha
    2 View Details [231..304] Pcons 2.59 Constant regulatory domain of protein phosphatase 2a, pr65alpha
    3 View Details [305..456] Pcons 2.59 Constant regulatory domain of protein phosphatase 2a, pr65alpha
    4 View Details [457..693] Pcons 2.59 Constant regulatory domain of protein phosphatase 2a, pr65alpha
    5 View Details [694..1764] deduced N/A No confident structure predictions are available.
    6 View Details [1288..1511] deduced N/A No confident structure predictions are available.
    7 View Details [1512..1764] deduced N/A No confident structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • binding
    		•  2.36800795249393 bayes_pls_golite062009
  • RNA binding
    		•  1.78069099517213 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.59410102249793 bayes_pls_golite062009
  • protein binding
    		•  1.3800948965226 bayes_pls_golite062009
  • transcription regulator activity
    		•  1.08645493064764 bayes_pls_golite062009
  • DNA binding
    		•  0.956143892328242 bayes_pls_golite062009
  • transcription factor activity
    		•  0.371244009721798 bayes_pls_golite062009
  • structural molecule activity
    		•  0.174654450621335 bayes_pls_golite062009
  • mRNA binding
    		•  0.107084556647027 bayes_pls_golite062009
    2 No functions predicted.
    3 No functions predicted.
    4 No functions predicted.
    5 No functions predicted.
    6 No functions predicted.
    7 No functions predicted.


    Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076


    Philius Transmembrane Prediction:

    Protein predicted to be: GLOBULAR (No transmembrane regions or signal peptide)
    Confidence of classification: 0.90

    Source: Reynolds et al. (2008)

    YRC Informatics Platform - Version 3.0
    Created and Maintained by: Michael Riffle