YRC Public Data Repository - Protein Structure Prediction

Protein:	RISA_YEAST
Organism:	Saccharomyces cerevisiae S288c
Length:	238 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 RISA_YEAST.

Description	E-value	Query Range	Subject Range
RISA_YEAST - Riboflavin synthase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RIB5 PE=1 SV=1 gi\|190408593 - gi\|190408593\|gb\|EDV11858.1\| riboflavin synthase alpha chain [Saccharomyces cerevisiae RM11-1a] RIB5 - Riboflavin synthase; catalyzes the last step of the riboflavin biosynthesis pathway	5.0E-83	[1..238]	[1..238]
RISA_PICGU - Riboflavin synthase alpha chain OS=Pichia guilliermondii GN=RIB5 PE=2 SV=2	3.0E-76	[1..238]	[1..238]
gi\|187733834, gi... - gi\|75175189\|ref\|ZP_00695507.1\| COG0307: Riboflavin synthase alpha chain [Shigella boydii BS512], gi\|... gi\|75190701, gi\|... - gi\|75190701\|ref\|ZP_00703968.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli E24377A], ... gi\|83584597, gi\|... - gi\|83584597\|ref\|ZP_00923267.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli 101-1], gi... gi\|193071595, gi... - gi\|75214854\|ref\|ZP_00713337.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli E110019], ... gi\|190904078, gi... - gi\|75230890\|ref\|ZP_00717339.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli B7A], gi\|1... gi\|157161128, gi... - gi\|75195741\|ref\|ZP_00705811.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli HS], gi\|15... gi\|194415998, gi... - gi\|75212998\|ref\|ZP_00712996.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli B171], gi\|... gi\|218427171, gi... - gi\|218689607\|ref\|YP_002397819.1\| riboflavin synthase subunit alpha [Escherichia coli ED1a], gi\|21842... gi\|218351957, gi... - gi\|218695225\|ref\|YP_002402892.1\| riboflavin synthase subunit alpha [Escherichia coli 55989], gi\|2183... gi\|218699770, gi... - gi\|218699770\|ref\|YP_002407399.1\| riboflavin synthase subunit alpha [Escherichia coli IAI39], gi\|2183... gi\|218432259, gi... - gi\|218705162\|ref\|YP_002412681.1\| riboflavin synthase subunit alpha [Escherichia coli UMN026], gi\|218... gi\|115512968, gi... - gi\|117623844\|ref\|YP_852757.1\| riboflavin synthase subunit alpha [Escherichia coli APEC O1], gi\|11551... gi\|124531607, gi... - gi\|124531607\|ref\|ZP_01701818.1\| riboflavin synthase, alpha subunit [Escherichia coli B], gi\|12449846... gi\|89108504, gi\|... - gi\|89108504\|ref\|AP_002284.1\| riboflavin synthase, alpha subunit [Escherichia coli str. K-12 substr. ... gi\|91210876, gi\|... - gi\|91210876\|ref\|YP_540862.1\| riboflavin synthase subunit alpha [Escherichia coli UTI89], gi\|91072450... RISA_ECOLI - Riboflavin synthase alpha chain (EC 2.5.1.9) - Escherichia coli gi\|110615188, gi... - gi\|110805640\|ref\|YP_689160.1\| riboflavin synthase subunit alpha [Shigella flexneri 5 str. 8401], gi\|... gi\|237705610, gi... - gi\|237705610\|ref\|ZP_04536091.1\| riboflavin synthase subunit alpha [Escherichia sp. 3_2_53FAA], gi\|22... EG11406 - riboflavin synthase, alpha subunit / Riboflavin synthase; homotrimer; associated with RibE 60-mer gi\|238900879, gi... - gi\|238900879\|ref\|YP_002926675.1\| riboflavin synthase, alpha subunit [Escherichia coli BW2952], gi\|23... gi\|251785119, gi... - gi\|251785119\|ref\|YP_002999423.1\| hypothetical protein B21_01623 [Escherichia coli BL21], gi\|24237739... gi\|253773379, gi... - gi\|254288514\|ref\|YP_003054262.1\| riboflavin synthase subunit alpha [Escherichia coli BL21(DE3)], gi\|... gi\|254161725, gi... - gi\|254161725\|ref\|YP_003044833.1\| riboflavin synthase subunit alpha [Escherichia coli B str. REL606],... gi\|30063178, gi\|... - gi\|30063178\|ref\|NP_837349.1\| riboflavin synthase subunit alpha [Shigella flexneri 2a str. 2457T], gi... EG11406 - riboflavin synthase, alpha subunit / Riboflavin synthase; homotrimer; associated with RibE 60-mer RISA_SHIFL - Riboflavin synthase OS=Shigella flexneri GN=ribE PE=3 SV=1 gi\|24113052, gi\|... - gi\|24113052\|ref\|NP_707562.1\| riboflavin synthase subunit alpha [Shigella flexneri 2a str. 301], gi\|2... gi\|169754914, gi... - gi\|170019986\|ref\|YP_001724940.1\| riboflavin synthase subunit alpha [Escherichia coli ATCC 8739], gi\|... gi\|169889159, gi... - gi\|170081324\|ref\|YP_001730644.1\| riboflavin synthase, alpha subunit [Escherichia coli str. K-12 subs... gi\|170521426, gi... - gi\|170683708\|ref\|YP_001743590.1\| riboflavin synthase, alpha subunit [Escherichia coli SMS-3-5], gi\|1... gi\|209918977, gi... - gi\|209918977\|ref\|YP_002293061.1\| riboflavin synthase subunit alpha [Escherichia coli SE11], gi\|20991... gi\|215264911, gi... - gi\|215486839\|ref\|YP_002329270.1\| riboflavin synthase subunit alpha [Escherichia coli O127:H6 str. E2... gi\|218554230, gi... - gi\|218554230\|ref\|YP_002387143.1\| riboflavin synthase subunit alpha [Escherichia coli IAI1], gi\|21836... gi\|218365302, gi... - gi\|218558533\|ref\|YP_002391446.1\| riboflavin synthase subunit alpha [Escherichia coli S88], gi\|218365... gi\|73855488, gi\|... - gi\|74312011\|ref\|YP_310430.1\| riboflavin synthase subunit alpha [Shigella sonnei Ss046], gi\|73855488\|... gi\|81241286, gi\|... - gi\|82777138\|ref\|YP_403487.1\| riboflavin synthase subunit alpha [Shigella dysenteriae Sd197], gi\|8124... gi\|192927457, gi... - gi\|75257081\|ref\|ZP_00728641.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli E22], gi\|1... gi\|188490072, gi... - gi\|75512904\|ref\|ZP_00735385.1\| COG0307: Riboflavin synthase alpha chain [Escherichia coli 53638], gi... gi\|81245379, gi\|... - gi\|82543968\|ref\|YP_407915.1\| riboflavin synthase subunit alpha [Shigella boydii Sb227], gi\|81245379\|...	1.0E-72	[1..221]	[1..207]
gi\|15831625, gi\|... - gi\|15831625\|ref\|NP_310398.1\| riboflavin synthase subunit alpha [Escherichia coli O157:H7], gi\|133618... gi\|188013792, gi... - gi\|188013792\|gb\|EDU51914.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. EC4113... gi\|25287076, gi\|... - pir\|\|G85773 riboflavin synthase, alpha chain [imported] - Escherichia coli (strain O157:H7, substrai... gi\|12515660, gi\|... - gi\|15802076\|ref\|NP_288098.1\| riboflavin synthase subunit alpha [Escherichia coli O157:H7 EDL933], gi... gi\|195940242 - gi\|195940242\|ref\|ZP_03085624.1\| riboflavin synthase subunit alpha [Escherichia coli O157:H7 str. EC4... gi\|168802902, gi... - gi\|189375261\|gb\|EDU93677.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. EC508]... gi\|168783936, gi... - gi\|188998810\|gb\|EDU67796.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. EC4076... gi\|189359620, gi... - gi\|189359620\|gb\|EDU78039.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. EC4486... gi\|15831625, gi\|... - gi\|15831625\|ref\|NP_310398.1\| riboflavin synthase subunit alpha [Escherichia coli O157:H7 str. Sakai]... gi\|217318076, gi... - gi\|217328729\|ref\|ZP_03444810.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. TW... gi\|209158023, gi... - gi\|209396623\|ref\|YP_002270732.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. E... gi\|208738300, gi... - gi\|208818177\|ref\|ZP_03258497.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. EC... gi\|208731032, gi... - gi\|208816689\|ref\|ZP_03257809.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. EC... gi\|254592681, gi... - gi\|254793281\|ref\|YP_003078118.1\| riboflavin synthase, alpha subunit [Escherichia coli O157:H7 str. T...	2.0E-72	[1..221]	[1..207]
gi\|167400925, gi... - gi\|167400925\|ref\|ZP_02306431.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Antiqua s... gi\|166210530, gi... - gi\|166210530\|ref\|ZP_02236565.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Antiqua s... gi\|167424969, gi... - gi\|167424969\|ref\|ZP_02316722.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Mediaeval... gi\|166958876, gi... - gi\|167422064\|ref\|ZP_02313817.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Orientali... gi\|167469400 - gi\|167469400\|ref\|ZP_02334104.1\| riboflavin synthase, alpha subunit [Yersinia pestis FV-1] gi\|165938654, gi... - gi\|89103803\|ref\|ZP_01176367.1\| COG0307: Riboflavin synthase alpha chain [Yersinia pestis biovar Orie... gi\|108807731, gi... - gi\|108807731\|ref\|YP_651647.1\| riboflavin synthase subunit alpha [Yersinia pestis Antiqua], gi\|108779... gi\|229680654, gi... - gi\|229902319\|ref\|ZP_04517439.1\| riboflavin synthase, alpha subunit [Yersinia pestis Nepal516], gi\|22... gi\|165990449, gi... - gi\|166010747\|ref\|ZP_02231645.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Antiqua s... gi\|165926437, gi... - gi\|165926437\|ref\|ZP_02222269.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Orientali... gi\|22125838, gi\|... - gi\|22125838\|ref\|NP_669261.1\| riboflavin synthase subunit alpha [Yersinia pestis KIM], gi\|21958768\|gb... gi\|25287081 - pir\|\|AH0291 riboflavin synthase (EC 2.5.1.9) alpha chain [imported] - Yersinia pestis (strain CO92) gi\|218929482, gi... - gi\|218929482\|ref\|YP_002347357.1\| riboflavin synthase subunit alpha [Yersinia pestis CO92], gi\|161226... gi\|45441969, gi\|... - gi\|45441969\|ref\|NP_993508.1\| riboflavin synthase subunit alpha [Yersinia pestis biovar Microtus str.... gi\|229837916, gi... - gi\|229837916\|ref\|ZP_04458075.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Orientali... gi\|229701965, gi... - gi\|229895077\|ref\|ZP_04510254.1\| riboflavin synthase, alpha subunit [Yersinia pestis Pestoides A], gi... gi\|229688523, gi... - gi\|229898479\|ref\|ZP_04513625.1\| riboflavin synthase, alpha subunit [Yersinia pestis biovar Orientali... gi\|77633713, gi\|... - gi\|77633713\|ref\|ZP_00795832.1\| COG0307: Riboflavin synthase alpha chain [Yersinia pestis Angola], gi... gi\|149292111, gi... - gi\|149365698\|ref\|ZP_01887733.1\| riboflavin synthase alpha chain [Yersinia pestis CA88-4125], gi\|1492...	4.0E-72	[1..224]	[1..210]
gi\|11352486 - pir\|\|G83137 riboflavin synthase alpha chain PA4055 [imported] - Pseudomonas aeruginosa (strain PAO1) gi\|46164645, gi\|... - gi\|46164645\|ref\|ZP_00137498.2\| COG0307: Riboflavin synthase alpha chain [Pseudomonas aeruginosa UCBP... gi\|126168875, gi... - gi\|84319134\|ref\|ZP_00967537.1\| COG0307: Riboflavin synthase alpha chain [Pseudomonas aeruginosa C371... gi\|254242737, gi... - gi\|84325188\|ref\|ZP_00973228.1\| COG0307: Riboflavin synthase alpha chain [Pseudomonas aeruginosa 2192... gi\|9950252, gi\|1... - gi\|9950252\|gb\|AAG07442.1\|AE004822_2 riboflavin synthase alpha chain [Pseudomonas aeruginosa PAO1], g... gi\|218769887, gi... - gi\|218889664\|ref\|YP_002438528.1\| riboflavin synthase subunit alpha [Pseudomonas aeruginosa LESB58], ...	6.0E-72	[1..214]	[1..203]
RISA_ACTPL - Riboflavin synthase OS=Actinobacillus pleuropneumoniae GN=ribE PE=3 SV=1	1.0E-71	[1..215]	[1..203]
gi\|6572099 - gi\|6572099\|emb\|CAB63083.1\| riboflavin synthase alpha chain [Bartonella bacilliformis] gi\|120614474, gi... - gi\|83751284\|ref\|ZP_00947698.1\| COG0307: Riboflavin synthase alpha chain [Bartonella bacilliformis KC...	2.0E-71	[1..212]	[1..205]
lcl\|NC_016856.1_... - [gene=ribE] [protein=riboflavin synthase subunit alpha] [protein_id=YP_005237295.1] [location=151352... gi\|16764774, gi\|... - gi\|16764774\|ref\|NP_460389.1\| riboflavin synthase subunit alpha [Salmonella typhimurium LT2], gi\|1641... gi\|197939190, gi... - gi\|198244674\|ref\|YP_002215708.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. ente... gi\|204322900, gi... - gi\|204927558\|ref\|ZP_03218759.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enter... gi\|194713100, gi... - gi\|194737598\|ref\|YP_002114437.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. ente... gi\|197215495, gi... - gi\|197251792\|ref\|YP_002146619.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. ente... gi\|205341333, gi... - gi\|205341333\|gb\|EDZ28097.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enterica ... gi\|194457692, gi... - gi\|194471328\|ref\|ZP_03077312.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enter... gi\|197291134, gi... - gi\|197291134\|gb\|EDY30487.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enterica ... gi\|168263743, gi... - gi\|205347604\|gb\|EDZ34235.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enterica ... gi\|205327820, gi... - gi\|205327820\|gb\|EDZ14584.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enterica ... gi\|168229797, gi... - gi\|205335428\|gb\|EDZ22192.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enterica ... gi\|161614158, gi... - gi\|161614158\|ref\|YP_001588123.1\| riboflavin synthase subunit alpha [Salmonella enterica subsp. enter... gi\|205323522, gi... - gi\|205323522\|gb\|EDZ11361.1\| riboflavin synthase, alpha subunit [Salmonella enterica subsp. enterica ...	3.0E-70	[1..220]	[1..206]
gi\|11258531 - pir\|\|E82098 riboflavin synthase, alpha chain VC2270 [imported] - Vibrio cholerae (strain N16961 sero... gi\|125619300, gi... - gi\|75828875\|ref\|ZP_00758207.1\| COG0307: Riboflavin synthase alpha chain [Vibrio cholerae MO10], gi\|2... gi\|227118716, gi... - gi\|75827558\|ref\|ZP_00756993.1\| COG0307: Riboflavin synthase alpha chain [Vibrio cholerae O395], gi\|2... gi\|254226774, gi... - gi\|75818772\|ref\|ZP_00748897.1\| COG0307: Riboflavin synthase alpha chain [Vibrio cholerae V51], gi\|25... gi\|75814846, gi\|... - gi\|75814846\|ref\|ZP_00745391.1\| COG0307: Riboflavin synthase alpha chain [Vibrio cholerae V52], gi\|12... gi\|9656832, gi\|1... - gi\|9656832\|gb\|AAF95414.1\| riboflavin synthase, alpha subunit [Vibrio cholerae O1 biovar El Tor str. ... gi\|121549589, gi... - gi\|121586177\|ref\|ZP_01675968.1\| riboflavin synthase, alpha subunit [Vibrio cholerae 2740-80], gi\|121... gi\|153216171, gi... - gi\|153216171\|ref\|ZP_01950310.1\| riboflavin synthase, alpha subunit [Vibrio cholerae 1587], gi\|124114... gi\|153221357, gi... - gi\|153221357\|ref\|ZP_01952335.1\| riboflavin synthase, alpha subunit [Vibrio cholerae MAK 757], gi\|124... gi\|153828200, gi... - gi\|153828200\|ref\|ZP_01980867.1\| riboflavin synthase, alpha subunit [Vibrio cholerae 623-39], gi\|1488... gi\|126519221, gi... - gi\|229512148\|ref\|ZP_04401627.1\| riboflavin synthase alpha chain [Vibrio cholerae B33], gi\|229352113\|... gi\|227010282, gi... - gi\|227082394\|ref\|YP_002810945.1\| riboflavin synthase, alpha subunit [Vibrio cholerae M66-2], gi\|2270... gi\|229355162, gi... - gi\|229507657\|ref\|ZP_04397162.1\| riboflavin synthase alpha chain [Vibrio cholerae BX 330286], gi\|2293... gi\|229513911, gi... - gi\|229513911\|ref\|ZP_04403373.1\| riboflavin synthase alpha chain [Vibrio cholerae TMA 21], gi\|2293490... gi\|229343972, gi... - gi\|229519283\|ref\|ZP_04408726.1\| riboflavin synthase alpha chain [Vibrio cholerae RC9], gi\|229343972\|... gi\|229341140, gi... - gi\|229522215\|ref\|ZP_04411632.1\| riboflavin synthase alpha chain [Vibrio cholerae TM 11079-80], gi\|22... gi\|229369816, gi... - gi\|229607161\|ref\|YP_002877809.1\| riboflavin synthase alpha chain [Vibrio cholerae MJ-1236], gi\|22936...	6.0E-70	[1..216]	[1..205]

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Predicted Domain #1

Region A:
Residues: [1-105]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFTGIVECMG TVLENNPYDD SESGGQGVSI TIGNAGSILT DCHVGDSIAV NGVCLTVTEF  60
   61 NNDSFKVGIS PETIKRSNVA SWIQGTQVNL ERAVSQDVRF GGHYV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	283.855515
Match:	1i8dA_
Description:	Riboflavin synthase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
riboflavin synthase activity	5.11500941509376	bayes_pls_golite062009
catalytic activity	2.05427820269334	bayes_pls_golite062009
transferase activity	0.708491789248912	bayes_pls_golite062009
binding	0.534066059984103	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [106-238]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QGHVDTVANI VSRRPEGNSI IFGFQLRDQE YFKYIVEKGF ICIDGTSLTI IKVDPLSQGG  60
   61 AFYISMIKHT QDNVIMPLKK IGDEVNIEVD LTGKIIEKQI LLTLENQISK KDSTLNTMIS 120
  121 NIIEEKVRNY LNK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	283.855515
Match:	1i8dA_
Description:	Riboflavin synthase
Matching Structure (courtesy of the PDB):

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: