YRC Logo
PROTEIN SEARCH:
Descriptions Names[Advanced Search]

View Structure Prediction Details

Protein: NIP1
Organism: Saccharomyces cerevisiae
Length: 812 amino acids
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



[What does the above image mean?]


[Show Ginzu Version Information]


Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for NIP1.

Description E-value Query
Range
Subject
Range
NIP1 - eIF3c subunit of the eukaryotic translation initiation factor 3 (eIF3), involved in the assembly of ...
EIF3C_YEAST - Eukaryotic translation initiation factor 3 subunit C OS=Saccharomyces cerevisiae (strain ATCC 204508...
0.0 [1..812] [1..812]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
0.0 [1..812] [1..812]
EIF3C_ARATH - Eukaryotic translation initiation factor 3 subunit C OS=Arabidopsis thaliana GN=TIF3C1 PE=1 SV=2
0.0 [46..812] [3..804]
EIF3C_MEDTR - Eukaryotic translation initiation factor 3 subunit C OS=Medicago truncatula GN=TIF3C1 PE=2 SV=1
0.0 [46..812] [3..824]
tif33 - translation initiation factor eIF3c
EIF3C_SCHPO - Eukaryotic translation initiation factor 3 subunit C OS=Schizosaccharomyces pombe (strain 972 / ATCC...
0.0 [13..812] [75..895]

Back

Predicted Domain #1
Region A:
Residues: [1-646]
      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 KVKRIP

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2
Region A:
Residues: [647-706]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YSPKSIRRSL EHYDKLSFQG PPETLRDYVL FAAKSMQKGN WRDSVKYLRE IKSWALLPNM  60
   61 

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3
Region A:
Residues: [707-812]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETVLNSLTER VQVESLKTYF FSFKRFYSSF SVAKLAELFD LPENKVVEVL QSVIAELEIP  60
   61 AKLNDEKTIF VVEKGDEITK LEEAMVKLNK EYKIAKERLN PPSNRR

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 15.420216
Match: PF01399
Description: PCI domain

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #4
Region A:
Residues: [358-442]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DSDGVKRILG SIFSFVERLD DEFMKSLLNI DPHSSDYLIR LRDEQSIYNL ILRTQLYFEA  60
   61 TLKDEHDLER ALTRPFVKRL DHIYY

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5
Region A:
Residues: [443-535]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KSENLIKIME TAAWNIIPAQ FKSKFTSKDQ LDSADYVDNL IDGLSTILSK QNNIAVQKRA  60
   61 ILYNIYYTAL NKDFQTAKDM LLTSQVQTNI NQF

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #6
Region A:
Residues: [536-662]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DSSLQILFNR VVVQLGLSAF KLCLIEECHQ ILNDLLSSSH LREILGQQSL HRISLNSSNN  60
   61 ASADERARQC LPYHQHINLD LIDVVFLTCS LLIEIPRMTA FYSGIKVKRI PYSPKSIRRS 120
  121 LEHYDKL

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #7
Region A:
Residues: [663-812]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SFQGPPETLR DYVLFAAKSM QKGNWRDSVK YLREIKSWAL LPNMETVLNS LTERVQVESL  60
   61 KTYFFSFKRF YSSFSVAKLA ELFDLPENKV VEVLQSVIAE LEIPAKLNDE KTIFVVEKGD 120
  121 EITKLEEAMV KLNKEYKIAK ERLNPPSNRR 

[Run NCBI BLAST on this sequence.]

Detection Method: FFAS03
Confidence: 1.9
Match: 1ufmA
Description: Solution structure of the PCI domain
Matching Structure (courtesy of the PDB):

Predicted functions:

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

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