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View Structure Prediction Details

Protein: NOP12
Organism: Saccharomyces cerevisiae
Length: 459 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 NOP12.

Description E-value Query
Range		 Subject
Range
PABP1_BOVIN - Polyadenylate-binding protein 1 OS=Bos taurus GN=PABPC1 PE=2 SV=1
gi|109087089 - gi|109087089|ref|XP_001098239.1| PREDICTED: poly(A) binding protein, cytoplasmic 1 isoform 2 [Macaca...
gi|123993665, gi... - gi|168278070|dbj|BAG11013.1| polyadenylate-binding protein 1 [synthetic construct], gi|123999981|gb|...
gi|194036975 - gi|194036975|ref|XP_001927782.1| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-bind...
PABPC1 - poly(A) binding protein, cytoplasmic 1
gi|73974130, gi|... - gi|73974178|ref|XP_857695.1| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...
 2.0E-88 [5..371] [15..385]
PABP1_MOUSE - Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2
 2.0E-88 [5..371] [15..385]
PABP1_RAT - Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=1 SV=1
 5.0E-88 [5..371] [15..385]
gi|2665654 - gi|2665654|gb|AAB88449.1| polyadenylate binding protein [Petromyzon marinus]
 5.0E-87 [5..372] [15..387]
gi|19526272 - gi|19526272|gb|AAL89666.1|AF411956_7 polyA-binding protein [Takifugu rubripes]
 1.0E-86 [5..372] [15..386]
gi|64970 - gi|64970|emb|CAA40721.1| polyA binding protein [Xenopus laevis]
 3.0E-85 [5..380] [15..394]

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Predicted Domain #1
Region A:
Residues: [1-90] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSAIDNLFG NIDEKKIESS VDKLFSSSCG PINKLEVKSK TRTVLPDSKK RERAAEADQE  60
   61 EKEASKPDVS DEQTEEVALP KVKKAKKSKR

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 7.69897
Match: 1fj7A_
Description: Nucleolin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 6.04120049976231 bayes_pls_golite062009
mRNA binding 4.29904003387927 bayes_pls_golite062009
nucleic acid binding 3.81920018903278 bayes_pls_golite062009
3.36965439092178 bayes_pls_golite062009
binding 3.05116833253954 bayes_pls_golite062009
single-stranded RNA binding 2.32565125258004 bayes_pls_golite062009
poly-pyrimidine tract binding 1.99190411806363 bayes_pls_golite062009
structural molecule activity 1.29928829870122 bayes_pls_golite062009
transcription regulator activity 1.07788694919471 bayes_pls_golite062009
DNA binding 0.978604858165557 bayes_pls_golite062009
protein binding 0.89093640300829 bayes_pls_golite062009
snoRNA binding 0.87536768969411 bayes_pls_golite062009
snRNA binding 0.45487108214667 bayes_pls_golite062009
transcription factor activity 0.234742017105535 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [91-148] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NDEDEDLEAR YYAKLLNEEA EAEDDKPTVT KTDETSVPLT SAAKKVDFKE DELEKAER

[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: [149-270] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TVFIGNILST VITSKKVYKE FKKLFGTNPI AETEESGNEK EEESSKKSDN NEFAIESIRF  60
   61 RSISFDEALP RKVAFVQQKF HKSRDTINAY IVYKNKSAVR KICSNLNAVV FQDHHLRVDS 120
  121 VA

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 109.519517
Match: 1l3kA_
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 6.04120049976231 bayes_pls_golite062009
mRNA binding 4.29904003387927 bayes_pls_golite062009
nucleic acid binding 3.81920018903278 bayes_pls_golite062009
3.36965439092178 bayes_pls_golite062009
binding 3.05116833253954 bayes_pls_golite062009
single-stranded RNA binding 2.32565125258004 bayes_pls_golite062009
poly-pyrimidine tract binding 1.99190411806363 bayes_pls_golite062009
structural molecule activity 1.29928829870122 bayes_pls_golite062009
transcription regulator activity 1.07788694919471 bayes_pls_golite062009
DNA binding 0.978604858165557 bayes_pls_golite062009
protein binding 0.89093640300829 bayes_pls_golite062009
snoRNA binding 0.87536768969411 bayes_pls_golite062009
snRNA binding 0.45487108214667 bayes_pls_golite062009
transcription factor activity 0.234742017105535 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [271-372] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HPAPHDKKRS IFVGNLDFEE IEESLWKHFE PCGDIEYVRI IRDSKTNMGK GFAYVQFKDL  60
   61 QSVNKALLLN EKPMKSQKQE DENTKKPTKK ARKLRVSRCK NM

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 109.519517
Match: 1l3kA_
Description: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [373-459] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKGTTIGTGL DRNGLTDSQR TRAGRAKKIL GKADRATLGQ EITIEGLRAK KGEGSTHLKK  60
   61 KKQRSATGRV TKRSIAFKKA QAEKSKK

[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.

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