YRC Public Data Repository - Protein Structure Prediction

Protein:	YCP4
Organism:	Saccharomyces cerevisiae
Length:	247 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 YCP4.

Description	E-value	Query Range	Subject Range
YCP4_YEAST - Flavoprotein-like protein YCP4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YCP4 PE=1... gi\|190406440 - gi\|190406440\|gb\|EDV09707.1\| protoplast secreted protein 2 precursor [Saccharomyces cerevisiae RM11-1... YCP4 - Protein of unknown function, has sequence and structural similarity to flavodoxins; predicted to be ... gi\|207347347 - gi\|207347347\|gb\|EDZ73547.1\| YCR004Cp-like protein [Saccharomyces cerevisiae AWRI1631]	1.0E-63	[1..247]	[1..247]
gi\|12484052 - gi\|12484052\|gb\|AAG53945.1\|AF304462_1 quinone-oxidoreductase QR2 [Triphysaria versicolor]	2.0E-51	[2..202]	[3..202]
gi\|4454993 - gi\|4454993\|gb\|AAD21025.1\| 1,4-benzoquinone reductase [Phanerochaete chrysosporium]	1.0E-50	[1..201]	[1..200]
FQR1_ARATH - NAD(P)H dehydrogenase (quinone) FQR1 OS=Arabidopsis thaliana GN=FQR1 PE=1 SV=1	1.0E-49	[2..201]	[3..200]
gi\|5031275 - gi\|5031275\|gb\|AAD38143.1\|AF139496_1 unknown [Prunus armeniaca]	2.0E-49	[2..201]	[3..200]
gi\|30027749, gi\|... - gi\|30027749\|gb\|AAL67860.2\|AF465406_1 NADH:quinone oxidoreductase [Gloeophyllum trabeum], gi\|18308202...	3.0E-49	[2..201]	[58..256]
ALTA7_ALTAL - Minor allergen Alt a 7 OS=Alternaria alternata GN=ALTA7 PE=1 SV=1	6.0E-49	[2..199]	[3..201]
WRBA_SALTI - Flavoprotein wrbA OS=Salmonella typhi GN=wrbA PE=3 SV=3 NQOR_SALTI - NAD(P)H dehydrogenase (quinone) OS=Salmonella typhi GN=STY1155 PE=3 SV=3 gi\|213163116 - gi\|213163116\|ref\|ZP_03348826.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serov... gi\|29142232, gi\|... - gi\|29142232\|ref\|NP_805574.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serovar ... gi\|16759997 - gi\|16759997\|ref\|NP_455614.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serovar ... gi\|214003496 - gi\|214003496\|ref\|ZP_03414231.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serov... gi\|213428508 - gi\|213428508\|ref\|ZP_03361258.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serov... gi\|213416804 - gi\|213416804\|ref\|ZP_03349948.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serov... gi\|213648756 - gi\|213648756\|ref\|ZP_03378809.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serov... gi\|213579930 - gi\|213579930\|ref\|ZP_03361756.1\| TrpR binding protein WrbA [Salmonella enterica subsp. enterica serov...	2.0E-48	[1..200]	[1..196]
NQOR_SALTY - NAD(P)H dehydrogenase (quinone) OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=S... lcl\|NC_016856.1_... - [gene=wraB] [protein=TrpR binding protein WrbA] [protein_id=YP_005236860.1] [location=complement(116... WRBA_SALTY - Flavoprotein wrbA OS=Salmonella typhimurium GN=wrbA PE=3 SV=3 WRBA_SALTY - Flavoprotein wrbA OS=Salmonella typhimurium GN=wrbA PE=3 SV=3 gi\|205328348, gi... - gi\|205328348\|gb\|EDZ15112.1\| NAD(P)H:quinone oxidoreductase, type IV [Salmonella enterica subsp. ente... gi\|167552614, gi... - gi\|205322772\|gb\|EDZ10611.1\| NAD(P)H:quinone oxidoreductase, type IV [Salmonella enterica subsp. ente... NQOR_SALPC - NAD(P)H dehydrogenase (quinone) OS=Salmonella paratyphi C (strain RKS4594) GN=SPC_2630 PE=3 SV=1 gi\|197241393, gi... - gi\|197263138\|ref\|ZP_03163212.1\| NAD(P)H:quinone oxidoreductase, type IV [Salmonella enterica subsp. ...	3.0E-48	[1..200]	[1..196]
gi\|17980998 - gi\|17980998\|gb\|AAL50803.1\|AF452883_1 Y20 protein [Paracoccidioides brasiliensis]	6.0E-48	[2..200]	[3..200]

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Predicted Domain #1

Region A:
Residues: [1-247]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKIAIITYS TYGHIDVLAQ AVKKGVEAAG GKADIYRVEE TLPDEVLTKM NAPQKPEDIP  60
   61 VATEKTLLEY DAFLFGVPTR FGNLPAQWSA FWDKTGGLWA KGSLNGKAAG IFVSTSSYGG 120
  121 GQESTVKACL SYLAHHGIIF LPLGYKNSFA ELASIEEVHG GSPWGAGTLA GPDGSRTASP 180
  181 LELRIAEIQG KTFYETAKKL FPAKEAKPST EKKTTTSDAA KRQTKPAAAT TAEKKEDKGL 240
  241 LSCCTVM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	27.522879
Match:	1ag9A_
Description:	Flavodoxin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	2.32880196921974	bayes_pls_golite062009
binding	1.54529414520518	bayes_pls_golite062009
oxidoreductase activity	1.2698167260481	bayes_pls_golite062009
catalytic activity	0.275631658558537	bayes_pls_golite062009
protein binding	0.191220795572558	bayes_pls_golite062009
transcription factor binding	0.0852528568191628	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: