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View Structure Prediction Details

Protein: NAM9
Organism: Saccharomyces cerevisiae
Length: 486 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



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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 NAM9.

Description E-value Query
Range		 Subject
Range
NAM9 - Mitochondrial ribosomal component of the small subunit
NAM9_YEAST - 37S ribosomal protein NAM9, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) G...
 0.0 [1..486] [1..486]
RR4_FUNHY - 30S ribosomal protein S4, chloroplastic OS=Funaria hygrometrica GN=rps4 PE=3 SV=1
 5.0E-78 [1..208] [1..200]
RR4_TOBAC - 30S ribosomal protein S4, chloroplastic OS=Nicotiana tabacum GN=rps4 PE=3 SV=1
RR4_NICSY - 30S ribosomal protein S4, chloroplastic OS=Nicotiana sylvestris GN=rps4 PE=3 SV=1
 2.0E-77 [1..209] [1..201]
RR4_ARATH - 30S ribosomal protein S4, chloroplastic OS=Arabidopsis thaliana GN=rps4 PE=3 SV=1
 2.0E-76 [1..209] [1..201]
RR4_SPIOL - 30S ribosomal protein S4, chloroplastic OS=Spinacia oleracea GN=rps4 PE=1 SV=3
 2.0E-76 [1..209] [1..201]
RR4_IRIPA - 30S ribosomal protein S4, chloroplastic (Fragment) OS=Iris pallida GN=rps4 PE=3 SV=1
 5.0E-76 [1..204] [1..196]
RR4_OENHO - Chloroplast 30S ribosomal protein S4 - Oenothera hookeri (Hooker's evening primrose)
 7.0E-76 [1..210] [1..202]
gi|6002039 - gi|6002039|emb|CAA58927.1| ribosomal protein S4 [Costus lucanusianus]
 1.0E-75 [1..204] [1..196]
RR4_LOTJA - 30S ribosomal protein S4, chloroplastic OS=Lotus japonicus GN=rps4 PE=3 SV=1
 1.0E-75 [1..209] [1..201]
gi|6002089 - gi|6002089|emb|CAA58954.1| ribosomal protein S4 [Typha angustifolia]
 1.0E-75 [1..204] [1..196]

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Predicted Domain #1
Region A:
Residues: [1-101] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPRKANLLKS LARGRVRTSF NKYNLFNLYK KGGVDLKSKS LYQQKWTAKQ ETRAYHGEHL  60
   61 TEKRWQTVFK PKLDSVAQLD ASLRGGEIKE TPFLLQTFAV L

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [213-259] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKLQFQEFLR QYNKNLESQQ YNALKGCTQE GILRKLLNVE KEIGKSN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 147.450636
Match: 1fkaD_
Description: 30S subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #2
Region A:
Residues: [102-212] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EKRLDFALFR AMFASSVRQA RQFILHGNVR VNGVKIKHPS YTLKPGDMFS VKPDKVLEAL  60
   61 GAKKPSFQEA LKIDKTQIVL WNKYVKEAKT EPKEVWEKKL ENFEKMSDSN P

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 147.450636
Match: 1fkaD_
Description: 30S subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [260-486] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NEPLSIDELK QGLPEIQDSQ LLESLNNAYQ EFFKSGEIRR EIISKCQPDE LISLATEMMN  60
   61 PNETTKKELS DGAKSALRSG KRIIAESVKL WTKNITDHFK TRMSDISDGS LTFDPKWAKN 120
  121 LKYHDPIKLS ELEGDEPKAR KLINLPWQKN YVYGRQDPKK PFFTPWKPRP FLSPFAILPH 180
  181 HLEISFKTCH AVYLRDPVAR PGQSEVISPF DVPVHERAYM YYLRNGK

[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.

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