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View Structure Prediction Details

Protein: SYF1
Organism: Saccharomyces cerevisiae
Length: 859 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 SYF1.

Description E-value Query
Range		 Subject
Range
gi|190404651 - gi|190404651|gb|EDV07918.1| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a]
SYF1_YEAST - Pre-mRNA-splicing factor SYF1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SYF1 PE=1 ...
SYF1 - Member of the NineTeen Complex (NTC) that contains Prp19p and stabilizes U6 snRNA in catalytic forms...
 0.0 [1..859] [1..859]
SYF1_RAT - Pre-mRNA-splicing factor SYF1 OS=Rattus norvegicus GN=Xab2 PE=2 SV=1
 1.0E-86 [19..844] [17..757]
SYF1_MOUSE - Pre-mRNA-splicing factor SYF1 OS=Mus musculus GN=Xab2 PE=1 SV=1
 2.0E-86 [19..844] [17..757]
gi|10566459 - gi|10566459|dbj|BAB15807.1| XAB2 [Homo sapiens]
 7.0E-86 [19..844] [17..757]
CE08909 - status:Partially_confirmed UniProt:P91175 protein_id:AAB37794.1
 2.0E-82 [19..840] [22..766]
CG6197-PA - This gene is referred to in FlyBase by the symbol Dmel\CG6197 (CG6197, FBgn0033859). It is a protein...
 1.0E-76 [7..811] [6..733]
cwf3 - complexed with Cdc5 protein Cwf3
SYF1_SCHPO - Pre-mRNA-splicing factor cwf3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cwf3 PE=1 SV...
 3.0E-67 [12..833] [7..753]

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Predicted Domain #1
Region A:
Residues: [1-161] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSAYIAMKGV ITNVDENIRN DEDVAFEYEI QKTPQNILTW KRYIEYWKEE GRTDKQIRWL  60
   61 YERFCSQFVT DTSIWEDYIR WESTKEVVET SRIFWLFQRC LKSCVRDCDR ICLSYLELAI 120
  121 EQYDLAMIRH ALASSLMKME REMHRKVWDP VIKFVEEKVL P

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 14.67
Match: 1jcqA
Description: Protein farnesyltransferase alpha-subunit
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 2.76684454218635 bayes_pls_golite062009
binding 2.71974493738804 bayes_pls_golite062009
transcription regulator activity 1.96129657517284 bayes_pls_golite062009
protein binding 1.6279032205159 bayes_pls_golite062009
nucleic acid binding 1.62783430593918 bayes_pls_golite062009
DNA binding 1.62663906748938 bayes_pls_golite062009
transcription factor activity 0.934706586922936 bayes_pls_golite062009
transcription factor binding 0.441518464573089 bayes_pls_golite062009
transcription cofactor activity 0.19094857768269 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [162-254] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LTQLDSTQED EEESTDEAEL INVLLVKGFT KGGFISEEIS ENGSRGDIWS SHILERYLKV  60
   61 APQQKRNESL ATLALTRDNI TIKSVYEKYL PQD

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 14.67
Match: 1jcqA
Description: Protein farnesyltransferase alpha-subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [255-372] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENSGKYLPSS ELPFELNFNY LASLEKLGLD NQYEEFMRQM NGIYPDKWLF LILSLAKYYI  60
   61 SRGRLDSCGD LLKKSLQQTL RYSDFDRIYN FYLLFEQECS QFILGKLKEN DSKFFNQK

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 14.67
Match: 1jcqA
Description: Protein farnesyltransferase alpha-subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [373-533] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DWTEKLQAHM ATFESLINLY DIYLNDVALR QDSNLVETWM KRVSLQKSAA EKCNVYSEAI  60
   61 LKIDPRKVGT PGSFGRLWCS YGDLYWRSNA ISTARELWTQ SLKVPYPYIE DLEEIYLNWA 120
  121 DRELDKEGVE RAFSILEDAL HVPTNPEILL EKYKNGHRKI P

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.221849
Match: 1fchA_
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [534-599] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AQTVLFNSLR IWSKYIDYLE AYCPKDANSS DKIFNKTKMA YNTVIDLRLI TPAMAENFAL  60
   61 FLQNHY

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.221849
Match: 1fchA_
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #6
Region A:
Residues: [600-657] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EVMESFQVYE KTIPLFPPEI QYELWIEYLE VATSHQLSSL SPEHIRFLFE KALKNLCS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 16.221849
Match: 1fchA_
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #7
Region A:
Residues: [658-756] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NGIDCKTIFI AYSVFEERIS GLISKSIEIL RRGAVIGTVS VSTHLESRLQ LWRMCISKAE  60
   61 STLGPSVTRE LYQECIQILP NSKAVEFVIK FSDFESSIG

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 10.95
Match: 1fchA
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):

Predicted Domain #8
Region A:
Residues: [757-859] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETIRAREILA YGAKLLPPSR NTELWDSFEI FELKHGDKET YKDMLKMKKV LESNMLIDSA  60
   61 SVSHEEGNIN FVAAATSHAP NSHTLTQSTS SYSINPDEIE LDI

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 10.95
Match: 1fchA
Description: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
Matching Structure (courtesy of the PDB):
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle