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Protein Overview: PRP40

General Information:
Name(s) found: PRP40 / YKL012W [SGD]
Description(s) found:
Found 23 descriptions.
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  • U1 snRNP protein involved in splicing, interacts with the branchpoint-binding protein during the formation of the second commitment complex [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 583 amino acids

    Gene Ontology:
    Cellular Component: U1 snRNP [IDALink to PubMed articleLink to PubMed article]
    Biological Process: nuclear mRNA splicing, via spliceosome [IDALink to PubMed article]
    Molecular Function: RNA binding [IDALink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSIWKEAKDA SGRIYYYNTL TKKSTWEKPK ELISQEELLL RENGWKAAKT ADGKVYYYNP  60
   61 TTRETSWTIP AFEKKVEPIA EQKHDTVSHA QVNGNRIALT AGEKQEPGRT INEEESQYAN 120
  121 NSKLLNVRRR TKEEAEKEFI TMLKENQVDS TWSFSRIISE LGTRDPRYWM VDDDPLWKKE 180
  181 MFEKYLSNRS ADQLLKEHNE TSKFKEAFQK MLQNNSHIKY YTRWPTAKRL IADEPIYKHS 240
  241 VVNEKTKRQT FQDYIDTLID TQKESKKKLK TQALKELREY LNGIITTSSS ETFITWQQLL 300
  301 NHYVFDKSKR YMANRHFKVL THEDVLNEYL KIVNTIENDL QNKLNELRLR NYTRDRIARD 360
  361 NFKSLLREVP IKIKANTRWS DIYPHIKSDP RFLHMLGRNG SSCLDLFLDF VDEQRMYIFA 420
  421 QRSIAQQTLI DQNFEWNDAD SDEITKQNIE KVLENDRKFD KVDKEDISLI VDGLIKQRNE 480
  481 KIQQKLQNER RILEQKKHYF WLLLQRTYTK TGKPKPSTWD LASKELGESL EYKALGDEDN 540
  541 IRRQIFEDFK PESSAPTAES ATANLTLTAS KKRHLTPAVE LDY

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) BRR1 BRR2 CBC2 CSN12 CUS1 DIB1 HSH155 LEA1 LUC7 MUD1 NAM8 PRP39 PRP4 PRP40 PRP42 PRP6 PRP8 RSE1 SMB1 SMD1 SMD2 SMD3 SME1 SMX3 SNP1 SNU114 SNU56 SNU66 SNU71 STO1 YHC1
    View Details (MIPS) Mewes HW, et al. (2004) AAR2 BRR1 BRR2 CBC2 CDC40 CWC15 CWC2 CWC22 CWC23 DHR2 LSM4 MAK5 MUD2 PRP16 PRP18 PRP2 PRP22 PRP24 PRP28 PRP31 PRP38 PRP39 PRP4 PRP40 PRP43 PRP5 PRP6 PRP8 SLU7 SMD1 SMD3 SME1 SNP1 SPP2 SPP381 STO1 YHC1
    View Details Krogan NJ, et al. (2006) AAR2 BRR1 BRR2 CSE1 LUC7 MUD1 NAM8 PRP2 PRP3 PRP31 PRP39 PRP40 PRP42 PRP6 PRP8 RRG7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNU114 SNU56 SNU66 SNU71 TAD2 YDL085C-A YHC1 YJU2 YNL092W
    View Details Gavin AC, et al. (2006) LUC7 MUD1 NAM8 PRP39 PRP40 PRP42 SNP1 SNU56 SNU71 YHC1
    View Details Gavin AC, et al. (2002) AAR2 AIR2 BRR1 BUD31 BUR2 CBC2 CDC33 CEF1 CLF1 CSN12 CUS1 CWC2 CWC22 CWC23 DHH1 DIB1 ECM2 GCN2 HRT1 HSH155 HSH49 HTA1 IMG1 KAP95 LEA1 LIN1 LSM1 LSM2 LSM4 LSM5 LSM6 LSM7 LUC7 MRP7 MRPL28 MRPL3 MRPL35 MRPL38 MRPL4 MRPL8 MRPS5 MSH4 MSL1 MUD1 NAB3 NAB6 NAM8 NPL3 NRD1 NUP60 PAT1 PRP11 PRP18 PRP19 PRP21 PRP24 PRP28 PRP3 PRP31 PRP38 PRP39 PRP4 PRP40 PRP42 PRP43 PRP46 PRP6 PRP8 PRP9 RSE1 RVB2 SCP160 SEN1 SGV1 SLU7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNT309 SNU114 SNU23 SNU56 SNU66 SNU71 SPP381 SPP382 SRB2 SRO9 SRP1 STO1 SYF1 THO2 TIF4631 TIF4632 TOS4 UTP21 YEF3 YML6 YRA2
    View Details Ho Y, et al. (2002) CKA1 CKA2 CKB1 CKB2 DIP2 ESL2 KRE33 LCP5 NAN1 NOP1 NOP56 PNO1 PRP40 PTC5 PWP2 RRP5 TFP1 UTP10 UTP11 UTP13 UTP14 UTP18 UTP21 UTP22 UTP30 UTP6
    View Details Qiu et al. (2008) AAR2 BRR1 BRR2 CBC2 CDC40 CEF1 CLF1 CUS1 CUS2 CWC15 CWC2 CWC21 CWC22 CWC23 DHR2 DIB1 ECM2 HSH155 HSH49 IST3 ISY1 LEA1 LSM2 LSM3 LSM4 LSM6 LSM8 LUC7 MAK5 MSL1 MUD1 MUD2 NAM8 NTC20 PRP11 PRP16 PRP18 PRP19 PRP2 PRP21 PRP22 PRP24 PRP28 PRP3 PRP31 PRP38 PRP39 PRP4 PRP40 PRP42 PRP43 PRP45 PRP46 PRP5 PRP6 PRP8 PRP9 RSE1 SLU7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNT309 SNU114 SNU23 SNU56 SNU66 SNU71 SPP2 SPP381 SPP382 STO1 SUB2 SYF1 SYF2 YHC1

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run MLP2 #04 Alpha Factor Prep2 Keck JM, et al. (2011)
    View Run MLP2 #12 Mitotic Prep1-TiO2 Flowthrough 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 PRP40 ACT1 2 Unpublished Fields Lab Data
    View Screen PRP40 SIP2 2 Unpublished Fields Lab Data
    View Screen SPP382 PRP40 2 Hazbun TR, et al. (2003)
    View Screen PRP40 SNU71 2 Unpublished Fields Lab Data
    View Screen PRP40 BNR1 2 Unpublished Fields Lab Data
    View Screen PRP40 PAN1 2 Unpublished Fields Lab Data
    View Screen THP2 PRP40 2 Unpublished Fields Lab Data
    View Screen SNX4 PRP40 2 Unpublished Fields Lab Data
    View Screen PRP40 RNP1 2 Unpublished Fields Lab Data
    View Screen PRP40 VRP1 2 Unpublished Fields Lab Data
    View Screen PRP40 LUC7 2 Unpublished Fields Lab Data
    View Screen PRP40 ADA2 2 Unpublished Fields Lab Data
    View Screen PRP40 SLG1 2 Unpublished Fields Lab Data
    View Screen PRP40 SNU71 2 Unpublished Fields Lab Data
    View Screen PRP40 HSM3 2 Unpublished Fields Lab Data
    View Screen PRP40 BNR1 2 Unpublished Fields Lab Data
    View Screen PRP40 LAS17 2 Unpublished Fields Lab Data
    View Screen PRP40 RVS167 2 Unpublished Fields Lab Data
    View Screen PRP40 MCA1 2 Unpublished Fields Lab Data

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data PRP40 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..33] PSI-BLAST 27.31133 Formin binding protein FBP28 domain
    2 View Details [34..82] PSI-BLAST 8.30103 Ubiquitin ligase NEDD4 WWIII domain
    3 View Details [83..153] deduced N/A No confident structure predictions are available.
    4 View Details [154..494] PSI-BLAST 23.69897 Heavy meromyosin subfragment
    5 View Details [495..583] Pfam 11.537602 FF domain No confident structure predictions are available.

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • transcription regulator activity
    		•  2.16402927467227 bayes_pls_golite062009
  • binding
    		•  2.02935060794966 bayes_pls_golite062009
  • transcription cofactor activity
    		•  1.56045209816163 bayes_pls_golite062009
  • transcription coactivator activity
    		•  1.54071619149498 bayes_pls_golite062009
  • transcription activator activity
    		•  1.50941346594353 bayes_pls_golite062009
  • transcription factor binding
    		•  1.46474521462806 bayes_pls_golite062009
  • protein binding
    		•  0.772594643545448 bayes_pls_golite062009
  • catalytic activity
    		•  0.210712504691113 bayes_pls_golite062009
    2 No functions predicted.
    3 No functions predicted.
    4 No functions predicted.
    5 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: 0.99

    Source: Reynolds et al. (2008)

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