YRC Public Data Repository - Protein Structure Prediction

Protein:	YDR539W
Organism:	Saccharomyces cerevisiae
Length:	503 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 YDR539W.

Description	E-value	Query Range	Subject Range
gi\|229700330, gi... - gi\|229896687\|ref\|ZP_04511853.1\| 3-polyprenyl-4-hydroxybenzoate carboxy-lyase [Yersinia pestis Pestoi... gi\|229900017, gi... - gi\|229900017\|ref\|ZP_04515154.1\| 3-polyprenyl-4-hydroxybenzoate carboxy-lyase [Yersinia pestis biovar... UBID_YERPA - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=ubiD... UBID_YERPN - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=ubi... gi\|165921849, gi... - gi\|165926325\|ref\|ZP_02222157.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Yersinia pestis biovar... gi\|167398700, gi... - gi\|167398700\|ref\|ZP_02304224.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Yersinia pestis biovar... gi\|167468669 - gi\|167468669\|ref\|ZP_02333373.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Yersinia pestis FV-1] UBID_YERPE - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Yersinia pestis GN=ubiD PE=3 SV=1 gi\|161484893 - gi\|161484893\|ref\|NP_667799.2\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Yersinia pestis KIM] gi\|16123905, gi\|... - gi\|218930773\|ref\|YP_002348648.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Yersinia pestis CO92]... gi\|161511318 - gi\|161511318\|ref\|NP_994569.2\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Yersinia pestis biovar M... gi\|153997172, gi... - gi\|153997172\|ref\|ZP_02022305.1\| hypothetical protein YPE_3627 [Yersinia pestis CA88-4125], gi\|149289... gi\|229695819, gi... - gi\|229839453\|ref\|ZP_04459612.1\| 3-polyprenyl-4-hydroxybenzoate carboxy-lyase [Yersinia pestis biovar...	0.0	[8..500]	[7..488]
gi\|227888545, gi... - gi\|227888545\|ref\|ZP_04006350.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli 83972... gi\|169757065, gi... - gi\|170022137\|ref\|YP_001727091.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli ATCC... gi\|170083321, gi... - gi\|170083321\|ref\|YP_001732641.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli str.... gi\|209921320, gi... - gi\|209921320\|ref\|YP_002295404.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli SE11... UBID_ECOL6 - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 ... gi\|75209532, gi\|... - gi\|75209532\|ref\|ZP_00709753.1\| COG0043: 3-polyprenyl-4-hydroxybenzoate decarboxylase and related dec... gi\|218556407, gi... - gi\|218556407\|ref\|YP_002389321.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli IAI1... EG11396 - 3-octaprenyl-4-hydroxybenzoate decarboxylase / 3-octaprenyl-4-hydroxybenzoate carboxylyase; ubiquino... gi\|190905792, gi... - gi\|75237624\|ref\|ZP_00721644.1\| COG0043: 3-polyprenyl-4-hydroxybenzoate decarboxylase and related dec... gi\|218560924, gi... - gi\|218560924\|ref\|YP_002393837.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli S88]... UBID_ECOLI - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase (EC 4.1.1.-) (Polyprenyl p-hydroxybenzoate decarboxylas... gi\|218354294, gi... - gi\|218697562\|ref\|YP_002405229.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli 5598... UBID_ECOL6 - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli O6 GN=ubiD PE=3 SV=1 gi\|75188583, gi\|... - gi\|75188583\|ref\|ZP_00701850.1\| COG0043: 3-polyprenyl-4-hydroxybenzoate decarboxylase and related dec... UBID_ECOUT - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain UTI89 / UPEC) GN=ubiD PE=3 ... EG11396 - 3-octaprenyl-4-hydroxybenzoate decarboxylase / 3-octaprenyl-4-hydroxybenzoate carboxylyase; ubiquino... gi\|85676210, gi\|... - gi\|89110179\|ref\|AP_003959.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli str. K-1... gi\|193067958, gi... - gi\|75238291\|ref\|ZP_00722290.1\| COG0043: 3-polyprenyl-4-hydroxybenzoate decarboxylase and related dec... UBID_SHISS - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Shigella sonnei (strain Ss046) GN=ubiD PE=3 SV=1 gi\|117626121, gi... - gi\|117626121\|ref\|YP_859444.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli APEC O1... gi\|124530422, gi... - gi\|124530422\|ref\|ZP_01701080.1\| UbiD family decarboxylases [Escherichia coli B], gi\|124499188\|gb\|EAY... gi\|238902916, gi... - gi\|238902916\|ref\|YP_002928712.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli BW29... gi\|226903047, gi... - gi\|237702876\|ref\|ZP_04533357.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia sp. 3_2_53...	0.0	[9..500]	[8..488]
gi\|209158495, gi... - gi\|209397095\|ref\|YP_002273360.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157... gi\|217326126, gi... - gi\|217326126\|ref\|ZP_03442210.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:... gi\|195938133 - gi\|195938133\|ref\|ZP_03083515.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli O157:... UBID_ECO57 - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli O157:H7 GN=ubiD PE=3 SV=1 gi\|208807339, gi... - gi\|208807339\|ref\|ZP_03249676.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:... gi\|208814111, gi... - gi\|208814111\|ref\|ZP_03255440.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:... gi\|208818827, gi... - gi\|208818827\|ref\|ZP_03259147.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:... gi\|12518721, gi\|... - gi\|15804433\|ref\|NP_290473.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli O157:H7 ... gi\|168775602, gi... - gi\|187768877\|gb\|EDU32721.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|209752992, gi... - pir\|\|A86072 probable oxidoreductase yigC [imported] - Escherichia coli (strain O157:H7, substrain E... gi\|189001542, gi... - gi\|189001542\|gb\|EDU70528.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|189373384, gi... - gi\|189373384\|gb\|EDU91800.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|189376658, gi... - gi\|189376658\|gb\|EDU95074.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|188015451, gi... - gi\|188015451\|gb\|EDU53573.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|189359300, gi... - gi\|189359300\|gb\|EDU77719.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|189365945, gi... - gi\|189365945\|gb\|EDU84361.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|168768128, gi... - gi\|189362604\|gb\|EDU81023.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Escherichia coli O157:H7 s... gi\|13364247, gi\|... - gi\|15834025\|ref\|NP_312798.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli O157:H7 ... gi\|254795839, gi... - gi\|254795839\|ref\|YP_003080676.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Escherichia coli O157...	0.0	[9..500]	[8..488]
gi\|16762156 - gi\|16762156\|ref\|NP_457773.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica subsp... UBID_SALTI - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Salmonella typhi GN=ubiD PE=3 SV=1 gi\|213586766 - gi\|213586766\|ref\|ZP_03368592.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica su... gi\|213646467 - gi\|213646467\|ref\|ZP_03376520.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica su... gi\|213854781 - gi\|213854781\|ref\|ZP_03383021.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica su... UBID_SALTI - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Salmonella typhi GN=ubiD PE=3 SV=1 gi\|214002451 - gi\|214002451\|ref\|ZP_03413186.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica su... gi\|194711389, gi... - gi\|194735887\|ref\|YP_002116904.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica s... gi\|197240957, gi... - gi\|197262702\|ref\|ZP_03162776.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica su... gi\|213162213 - gi\|213162213\|ref\|ZP_03347923.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica su... gi\|213427335 - gi\|213427335\|ref\|ZP_03360085.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica su... gi\|197288717, gi... - gi\|197288717\|gb\|EDY28092.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... gi\|168263129, gi... - gi\|205348082\|gb\|EDZ34713.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... gi\|194404446, gi... - gi\|194445783\|ref\|YP_002043207.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica s...	0.0	[9..500]	[8..488]
lcl\|NC_016856.1_... - [gene=yigC] [protein=3-octaprenyl-4-hydroxybenzoate carboxy-lyase] [protein_id=YP_005240244.1] [loca... UBID_SALTY - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC... gi\|204930222, gi... - gi\|204930222\|ref\|ZP_03221199.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica su... gi\|199603705, gi... - gi\|200386607\|ref\|ZP_03213219.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica su... gi\|168244670, gi... - gi\|205336501\|gb\|EDZ23265.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... gi\|205332072, gi... - gi\|205332072\|gb\|EDZ18836.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... gi\|205328159, gi... - gi\|205328159\|gb\|EDZ14923.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... gi\|205322166, gi... - gi\|205322166\|gb\|EDZ10005.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... UBID_SALTY - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Salmonella typhimurium GN=ubiD PE=3 SV=1 UBID_SALTY - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Salmonella typhimurium GN=ubiD PE=3 SV=1 gi\|194471194, gi... - gi\|194471194\|ref\|ZP_03077178.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica su... gi\|194448365, gi... - gi\|194448365\|ref\|YP_002047988.1\| 3-octaprenyl-4-hydroxybenzoate decarboxylase [Salmonella enterica s... gi\|205340977, gi... - gi\|205340977\|gb\|EDZ27741.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp.... gi\|168467604, gi... - gi\|195629958\|gb\|EDX48618.1\| 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Salmonella enterica subsp....	0.0	[9..500]	[8..488]
UBID_PASMU - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Pasteurella multocida GN=ubiD PE=3 SV=1 UBID_PASMU - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Pasteurella multocida (strain Pm70) GN=ubiD PE=3 SV=...	0.0	[8..500]	[4..485]
UBID_HAEDU - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Haemophilus ducreyi GN=ubiD PE=3 SV=1 UBID_HAEDU - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Haemophilus ducreyi (strain 35000HP / ATCC 700724) G...	0.0	[8..501]	[4..486]
UBID_PSEAE - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Pseudomonas aeruginosa GN=ubiD PE=3 SV=1 UBID_PSEA8 - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Pseudomonas aeruginosa (strain LESB58) GN=ubiD PE=3 ... UBID_PSEAB - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=ubiD P... UBID_PSEAE - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1... gi\|126169997, gi... - gi\|84317894\|ref\|ZP_00966329.1\| COG0043: 3-polyprenyl-4-hydroxybenzoate decarboxylase and related dec...	0.0	[8..501]	[4..486]
UBID_NEIMA - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Neisseria meningitidis serogroup A GN=ubiD PE=3 SV=1 gi\|11279993 - gi\|11279993\|pir\|\|F81823 conserved hypothetical protein NMA1952 [imported] - Neisseria meningitidis (... UBID_NEIMA - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Neisseria meningitidis serogroup A / serotype 4A (st...	0.0	[8..501]	[4..491]
UBID_NEIMB - (Q9JY86) 3-octaprenyl-4-hydroxybenzoate carboxy-lyase (EC 4.1.1.-) (Polyprenyl p-hydroxybenzoate dec... gi\|11279994 - pir\|\|H81051 conserved hypothetical protein NMB1694 [imported] - Neisseria meningitidis (strain MC58 ... gi\|7226949, gi\|1... - gi\|7226949\|gb\|AAF42042.1\| conserved hypothetical protein [Neisseria meningitidis MC58], gi\|15677542\|...	0.0	[8..501]	[6..493]

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Predicted Domain #1

Region A:
Residues: [1-503]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRKLNPALEF RDFIQVLKDE DDLIEITEEI DPNLEVGAIM RKAYESHLPA PLFKNLKGAS  60
   61 KDLFSILGCP AGLRSKEKGD HGRIAHHLGL DPKTTIKEII DYLLECKEKE PLPPITVPVS 120
  121 SAPCKTHILS EEKIHLQSLP TPYLHVSDGG KYLQTYGMWI LQTPDKKWTN WSIARGMVVD 180
  181 DKHITGLVIK PQHIRQIADS WAAIGKANEI PFALCFGVPP AAILVSSMPI PEGVSESDYV 240
  241 GAILGESVPV VKCETNDLMV PATSEMVFEG TLSLTDTHLE GPFGEMHGYV FKSQGHPCPL 300
  301 YTVKAMSYRD NAILPVSNPG LCTDETHTLI GSLVATEAKE LAIESGLPIL DAFMPYEAQA 360
  361 LWLILKVDLK GLQALKTTPE EFCKKVGDIY FRTKVGFIVH EIILVADDID IFNFKEVIWA 420
  421 YVTRHTPVAD QMAFDDVTSF PLAPFVSQSS RSKTMKGGKC VTNCIFRQQY ERSFDYITCN 480
  481 FEKGYPKGLV DKVNENWKRY GYK

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	202.49485
Match:	PF01977
Description:	3-octaprenyl-4-hydroxybenzoate carboxy-lyase

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 functions:

Term	Confidence	Notes
oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor	0.806130882178534	bayes_pls_golite062009
catalytic activity	0.660906721832294	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: