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Protein Overview: NIP1

General Information:
Name(s) found: NIP1 / YMR309C [SGD]
Description(s) found:
Found 21 descriptions.
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  • eIF3c subunit of the eukaryotic translation initiation factor 3 (eIF3), involved in the assembly of preinitiation complex and start codon selection [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 812 amino acids

    Gene Ontology:
    Cellular Component: multi-eIF complex [IDALink to PubMed article]
    cytoplasm [IDALink to PubMed articleLink to PubMed article]
    eukaryotic translation initiation factor 3 complex [IDALink to PubMed articleLink to PubMed article][IPILink to PubMed article]
    Biological Process: ribosome biogenesis [RCALink to PubMed article]
    translational initiation [IDALink to PubMed article][IGILink to PubMed article][IMPLink to PubMed article]
    Molecular Function: translation initiation factor activity [IDALink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRFFSSNYE YDVASSSSEE DLLSSSEEDL LSSSSSESEL DQESDDSFFN ESESESEADV  60
   61 DSDDSDAKPY GPDWFKKSEF RKQGGGSNKF LKSSNYDSSD EESDEEDGKK VVKSAKEKLL 120
  121 DEMQDVYNKI SQAENSDDWL TISNEFDLIS RLLVRAQQQN WGTPNIFIKV VAQVEDAVNN 180
  181 TQQADLKNKA VARAYNTTKQ RVKKVSRENE DSMAKFRNDP ESFDKEPTAD LDISANGFTI 240
  241 SSSQGNDQAV QEDFFTRLQT IIDSRGKKTV NQQSLISTLE ELLTVAEKPY EFIMAYLTLI 300
  301 PSRFDASANL SYQPIDQWKS SFNDISKLLS ILDQTIDTYQ VNEFADPIDF IEDEPKEDSD 360
  361 GVKRILGSIF SFVERLDDEF MKSLLNIDPH SSDYLIRLRD EQSIYNLILR TQLYFEATLK 420
  421 DEHDLERALT RPFVKRLDHI YYKSENLIKI METAAWNIIP AQFKSKFTSK DQLDSADYVD 480
  481 NLIDGLSTIL SKQNNIAVQK RAILYNIYYT ALNKDFQTAK DMLLTSQVQT NINQFDSSLQ 540
  541 ILFNRVVVQL GLSAFKLCLI EECHQILNDL LSSSHLREIL GQQSLHRISL NSSNNASADE 600
  601 RARQCLPYHQ HINLDLIDVV FLTCSLLIEI PRMTAFYSGI KVKRIPYSPK SIRRSLEHYD 660
  661 KLSFQGPPET LRDYVLFAAK SMQKGNWRDS VKYLREIKSW ALLPNMETVL NSLTERVQVE 720
  721 SLKTYFFSFK RFYSSFSVAK LAELFDLPEN KVVEVLQSVI AELEIPAKLN DEKTIFVVEK 780
  781 GDEITKLEEA MVKLNKEYKI AKERLNPPSN RR

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) FUN12 GCD11 HCR1 NIP1 PRT1 RPG1 RPS4B, RPS4A RPS8B, RPS8A SUI1 SUI2 SUI3 TIF34 TIF35 TIF5
    View Details (MIPS) Mewes HW, et al. (2004) GCD10 NIP1 PRT1 RPG1 SUI1 TIF34 TIF35
    View Details Krogan NJ, et al. (2006) ADE8 CHZ1 ECM2 HCR1 HEM12 KAP122 NIP1 PRT1 RPG1 SUI1 SYH1 TIF34 TIF35 TIF5 YOR052C
    View Details Gavin AC, et al. (2006) FUN12 HCR1 NIP1 PRT1 RLI1 RPG1 TIF34 TIF35 TIF5
    View Details Gavin AC, et al. (2002) AAR2 ACT1 ADH1 ARX1 ASC1 ATG9 AVO1 BDF2 BEM2 BMS1 BRX1 BUD20 CAB3 CBF5 CDC55 CEG1 CET1 CHD1 CIC1 CKA1 CKA2 CKB1 CKB2 CLU1 CTR9 CYR1 CYS4 DBP10 DBP9 DCP2 DRS1 DYN1 EBP2 ECM5 ERB1 FPR4 FUN12 GAR1 GCN1 GLT1 GLY1 HAS1 HAT1 HAT2 HCR1 HDA1 HER1 HHF1, HHF2 HIF1 HIS3 HOT1 HSC82 HSM3 ICL1 ILS1 IML1 INP2 IPI1 IPI3 IST2 ISW1 ISW2 KAP123 KRE33 KRR1 KTR5 LHP1 LIP2 LOC1 LSG1 LSM12 MAC1 MAK21 MAK5 MDN1 MIS1 MLC1 MLC2 MRP7 MRT4 MSB1 MYO1 MYO2 MYO4 NAP1 NHP2 NIP1 NIP7 NMD3 NMD5 NOC2 NOC3 NOG1 NOG2 NOP1 NOP12 NOP15 NOP16 NOP2 NOP4 NOP56 NOP6 NOP7 NSA1 NSA2 NUG1 PDB1 PFK1 POL2 PRO1 PRP4 PRP43 PRT1 PSD2 PSE1 PSH1 PUF6 REI1 RET1 RIC1 RIX1 RIX7 RLI1 RLP24 RLP7 RPA135 RPA190 RPC40 RPF1 RPF2 RPG1 RPN12 RPN3 RPN6 RPN8 RPN9 RPP2B RPT2 RPT3 RPT5 RPT6 RRP1 RRP12 RSA3 RSA4 RSC3 RTR1 RVB2 SAM1 SDA1 SEC7 SHE2 SHE3 SKI2 SMB1 SNU114 SNU13 SNU66 SPB1 SPB4 SPT16 SPT5 SRO9 SSA3 SSA4 SSF1 SUA7 SUI1 SUI2 SUI3 SUP45 TEL1 TIF34 TIF35 TIF4631 TIF4632 TIF5 TIF6 TOP2 TSC11 TUB3 UBP14 URB1 USO1 UTP10 UTP20 UTP21 UTP22 UTP6 VPS1 VTH2 YEF3 YFR006W YGL036W YGR102C YMR310C YPR077C YTA7 YTM1
    View Details Ho Y, et al. (2002) ARC18 ARC35 ARC40 ARP2 ARP3 ATP3 BEM2 COP1 CYS4 DUF1 EDE1 FOL2 HTB2 LHS1 NIP1 NOP4 POB3 POR1 RPG1 SES1 SRV2 SSZ1 SUI1 TIF34 TIF35 UBI4 YGL081W YLR241W YNL040W
    View Details Qiu et al. (2008) CLU1 FUN12 GCD11 HCR1 NIP1 PRT1 RPG1 SUI1 SUI2 SUI3 TIF34 TIF35 TIF5 YGR054W

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run RPA135 his-HA tag on RPA135 Schneider, DA, et al. (2006)
    View Run DAD1 Dam1-765 complex purified from yeast with Dad1-TAP Shimogawa MM, et al. (2006)
    View Run ZDS1 Sample 2- cpn2 from june 2005 McCusker D, et al (2007)
    View Run ZDS1 Sample 3 - cpn + atp, from june 2005 McCusker D, et al (2007)
    View Run BOI1 Sample boi 1 with ha tag from october 2005 McCusker D, et al (2007)
    View Run BOI1 Sample boi1 with gst from october 2005 McCusker D, et al (2007)
    View Run MLP2 #19 Asynchronous Prep1-TiO2 Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #24 Asynchronous Prep3-TiO2 Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #19b Asynchronous Prep1-new search criteria Keck JM, et al. (2011)
    View Run MLP2 #19a Asynchronous Prep1-new search criteria 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.]

    No yeast two-hybrid interactions found for this protein.

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data NIP1 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..646] MSA 1.014001 View MSA. No confident structure predictions are available.
    2 View Details [647..706] deduced N/A No confident structure predictions are available.
    3 View Details [707..812] Pfam 15.420216 PCI domain No confident structure predictions are available.
    4 View Details [358..442] MSA 1.040983 View MSA. No confident structure predictions are available.
    5 View Details [443..535] deduced N/A No confident structure predictions are available.
    6 View Details [536..662] MSA 1.048959 View MSA. No confident structure predictions are available.
    7 View Details [663..812] FFAS03 1.9 Solution structure of the PCI domain

    Functions predicted (by domain):

    # Gene Ontology predictions
    1 No functions predicted.
    2 No functions predicted.
    3 No functions predicted.
    4 No functions predicted.
    5 No functions predicted.
    6 No functions predicted.
    7
    Term Confidence Notes
  • structural constituent of ribosome
    		•  2.974370828939 bayes_pls_golite062009
  • transcription regulator activity
    		•  2.85334044543318 bayes_pls_golite062009
  • nucleic acid binding
    		•  2.8293727459515 bayes_pls_golite062009
  • structural molecule activity
    		•  2.72616711594099 bayes_pls_golite062009
  • DNA binding
    		•  2.66906990480864 bayes_pls_golite062009
  • binding
    		•  2.14387047687719 bayes_pls_golite062009
  • transcription factor activity
    		•  1.97506348695089 bayes_pls_golite062009
  • sequence-specific DNA binding
    		•  0.665091289283954 bayes_pls_golite062009
  • transcription activator activity
    		•  0.542530812773621 bayes_pls_golite062009
  • protein binding
    		•  0.474083852700444 bayes_pls_golite062009
  • transcription repressor activity
    		•  0.423955395883599 bayes_pls_golite062009
  • RNA binding
    		•  0.352569950847387 bayes_pls_golite062009


    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: 0.98

    Source: Reynolds et al. (2008)

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