YRC Public Data Repository - Protein Structure Prediction

Protein:	BIO2
Organism:	Saccharomyces cerevisiae
Length:	375 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 BIO2.

Description	E-value	Query Range	Subject Range
BIO2 - Biotin synthase, catalyzes the conversion of dethiobiotin to biotin, which is the last step of the b... gi\|190406713 - gi\|190406713\|gb\|EDV09980.1\| biotin synthase [Saccharomyces cerevisiae RM11-1a] gi\|151943558 - gi\|151943558\|gb\|EDN61869.1\| biotin synthase [Saccharomyces cerevisiae YJM789] BIOB_YEAST - Biotin synthase, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BIO2 PE=1...	9.0E-94	[1..375]	[1..375]
gi\|167550532, gi... - gi\|205324625\|gb\|EDZ12464.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Saintpaul s... BIOB_SALPB - Biotin synthase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=bioB PE=3 SV=1 BIOB_SALTY - Biotin synthase OS=Salmonella typhimurium GN=bioB PE=3 SV=2 BIOB_SALPC - Biotin synthase OS=Salmonella paratyphi C (strain RKS4594) GN=bioB PE=3 SV=1 BIOB_SALPB - Biotin synthase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=bioB PE=3 SV=1 gi\|195630936, gi... - gi\|195630936\|gb\|EDX49522.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Newport str... gi\|205327729, gi... - gi\|205327729\|gb\|EDZ14493.1\| biotin synthase [Salmonella enterica subsp. enterica serovar 4,[5],12:i:... BIOB_SALTY - Biotin synthase OS=Salmonella typhimurium GN=bioB PE=3 SV=2 lcl\|NC_016856.1_... - [gene=bioB] [protein=biotin synthetase] [protein_id=YP_005236513.1] [location=860511..861551] BIOB_SALTY - Biotin synthase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=bioB PE=3 SV=2 gi\|197264303, gi... - gi\|197264303\|ref\|ZP_03164377.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Saintpa... BIOB_SALNS - Biotin synthase OS=Salmonella newport (strain SL254) GN=bioB PE=3 SV=1	7.0E-83	[49..368]	[3..314]
gi\|238913354 - gi\|238913354\|ref\|ZP_04657191.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Tenness... BIOB_SALA4 - Biotin synthase OS=Salmonella agona (strain SL483) GN=bioB PE=3 SV=1 gi\|16759719 - gi\|16759719\|ref\|NP_455336.1\| biotin synthetase [Salmonella enterica subsp. enterica serovar Typhi st... gi\|213618803 - gi\|213618803\|ref\|ZP_03372629.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213583481 - gi\|213583481\|ref\|ZP_03365307.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Typhi s... BIOB_SALTI - Biotin synthase OS=Salmonella typhi GN=bioB PE=3 SV=1 gi\|213424808 - gi\|213424808\|ref\|ZP_03357558.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Typhi s... gi\|29142508, gi\|... - gi\|29142508\|ref\|NP_805850.1\| biotin synthetase [Salmonella enterica subsp. enterica serovar Typhi st... gi\|213052118 - gi\|213052118\|ref\|ZP_03344996.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Typhi s... gi\|214000510 - gi\|214000510\|ref\|ZP_03411245.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213647611 - gi\|213647611\|ref\|ZP_03377664.1\| biotin synthase [Salmonella enterica subsp. enterica serovar Typhi s...	2.0E-82	[49..368]	[3..314]
BIOB_YERPB - Biotin synthase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=bioB PE=3 SV=1 BIOB_YERPY - Biotin synthase OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=bioB PE=3 SV=1 gi\|149366853, gi... - gi\|149366853\|ref\|ZP_01888887.1\| biotin synthase [Yersinia pestis CA88-4125], gi\|149291227\|gb\|EDM4130... BIOB_YERPP - Biotin synthase OS=Yersinia pestis (strain Pestoides F) GN=bioB PE=3 SV=1 gi\|165989513, gi... - gi\|166011565\|ref\|ZP_02232463.1\| biotin synthase [Yersinia pestis biovar Antiqua str. E1979001], gi\|1... gi\|229697456, gi... - gi\|229841090\|ref\|ZP_04461249.1\| biotin synthase [Yersinia pestis biovar Orientalis str. PEXU2], gi\|2... gi\|165924397, gi... - gi\|165924397\|ref\|ZP_02220229.1\| biotin synthase [Yersinia pestis biovar Orientalis str. F1991016], g... gi\|229689541, gi... - gi\|229843194\|ref\|ZP_04463340.1\| biotin synthase [Yersinia pestis biovar Orientalis str. India 195], ... gi\|167050093, gi... - gi\|167400144\|ref\|ZP_02305657.1\| biotin synthase [Yersinia pestis biovar Antiqua str. UG05-0454], gi\|... gi\|229894028, gi... - gi\|229894028\|ref\|ZP_04509214.1\| biotin synthase [Yersinia pestis Pestoides A], gi\|229703913\|gb\|EEO90... BIOB_YERPS - Biotin synthase OS=Yersinia pseudotuberculosis GN=bioB PE=3 SV=1 gi\|166207300, gi... - gi\|166211529\|ref\|ZP_02237564.1\| biotin synthase [Yersinia pestis biovar Antiqua str. B42003004], gi\|... gi\|167057172, gi... - gi\|167424323\|ref\|ZP_02316076.1\| biotin synthase [Yersinia pestis biovar Mediaevalis str. K1973002], ... gi\|167419543, gi... - gi\|167419543\|ref\|ZP_02311296.1\| biotin synthase [Yersinia pestis biovar Orientalis str. MG05-1020], ... gi\|22126908, gi\|... - gi\|22126908\|ref\|NP_670331.1\| biotin synthase [Yersinia pestis KIM], gi\|21959945\|gb\|AAM86582.1\|AE0139... BIOB_YERPE - Biotin synthase OS=Yersinia pestis GN=bioB PE=3 SV=1 BIOB_YERPS - Biotin synthase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=bioB PE=3 SV=1 gi\|45435702, gi\|... - gi\|45440844\|ref\|NP_992383.1\| biotin synthase [Yersinia pestis biovar Microtus str. 91001], gi\|454357... BIOB_YERPG - Biotin synthase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=bioB PE=3 SV=1 gi\|115346926, gi... - gi\|218928315\|ref\|YP_002346190.1\| biotin synthase [Yersinia pestis CO92], gi\|16121447\|ref\|NP_404760.1... gi\|165913790, gi... - gi\|89102668\|ref\|ZP_01175285.1\| COG0502: Biotin synthase and related enzymes [Yersinia pestis biovar ... BIOB_YERPA - Biotin synthase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=bioB PE=3 SV=1 BIOB_YERPN - Biotin synthase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=bioB PE=3 SV=1	4.0E-82	[51..370]	[5..316]
gi\|208808075, gi... - gi\|208808075\|ref\|ZP_03250412.1\| biotin synthase [Escherichia coli O157:H7 str. EC4206], gi\|208727876... gi\|195936813 - gi\|195936813\|ref\|ZP_03082195.1\| biotin synthase [Escherichia coli O157:H7 str. EC4024] gi\|168786986, gi... - gi\|189373194\|gb\|EDU91610.1\| biotin synthase [Escherichia coli O157:H7 str. EC869], gi\|168786986\|ref\|... gi\|168779316, gi... - gi\|189002816\|gb\|EDU71802.1\| biotin synthase [Escherichia coli O157:H7 str. EC4076], gi\|168779316\|ref... gi\|217322605, gi... - gi\|217326384\|ref\|ZP_03442468.1\| biotin synthase [Escherichia coli O157:H7 str. TW14588], gi\|21732260... BIOB_ECO5E - Biotin synthase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=bioB PE=3 SV=1 gi\|208822295, gi... - gi\|208822295\|ref\|ZP_03262614.1\| biotin synthase [Escherichia coli O157:H7 str. EC4042], gi\|208737780... gi\|208815801, gi... - gi\|208815801\|ref\|ZP_03256980.1\| biotin synthase [Escherichia coli O157:H7 str. EC4045], gi\|208732449... gi\|168776427, gi... - gi\|187768146\|gb\|EDU31990.1\| biotin synthase [Escherichia coli O157:H7 str. EC4196], gi\|168776427\|ref... gi\|168763417, gi... - gi\|189366479\|gb\|EDU84895.1\| biotin synthase [Escherichia coli O157:H7 str. EC4501], gi\|168763417\|ref... gi\|168757116, gi... - gi\|189355846\|gb\|EDU74265.1\| biotin synthase [Escherichia coli O157:H7 str. EC4401], gi\|168757116\|ref... gi\|168750320, gi... - gi\|188015512\|gb\|EDU53634.1\| biotin synthase [Escherichia coli O157:H7 str. EC4113], gi\|168750320\|ref... gi\|254591369, gi... - gi\|254791969\|ref\|YP_003076806.1\| biotin synthase [Escherichia coli O157:H7 str. TW14359], gi\|2545913... gi\|15830107, gi\|... - gi\|15830107\|ref\|NP_308880.1\| biotin synthase [Escherichia coli O157:H7 str. Sakai], gi\|13360312\|dbj\|... gi\|209776122, gi... - pir\|\|E90735 biotin synthetase [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952)... BIOB_ECO57 - Biotin synthase OS=Escherichia coli O157:H7 GN=bioB PE=3 SV=3	7.0E-82	[50..370]	[4..316]
gi\|124532404, gi... - gi\|124532404\|ref\|ZP_01702230.1\| biotin synthase [Escherichia coli B], gi\|124498032\|gb\|EAY45566.1\| bi... BIOB_ECO8A - Biotin synthase OS=Escherichia coli O8 (strain IAI1) GN=bioB PE=3 SV=1 BIOB_ECO27 - Biotin synthase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=bioB PE=3 SV=1 BIOB_ECO7I - Biotin synthase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=bioB PE=3 SV=1 BIOB_ECO55 - Biotin synthase OS=Escherichia coli (strain 55989 / EAEC) GN=bioB PE=3 SV=1 gi\|195182795 - gi\|195182795\|dbj\|BAG66375.1\| biotin synthetase [Escherichia coli O111:H-] BIOB_ECOLU - Biotin synthase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=bioB PE=3 SV=1 gi\|89107626, gi\|... - gi\|89107626\|ref\|AP_001406.1\| biotin synthase [Escherichia coli str. K-12 substr. W3110], gi\|85674758... gi\|194411959, gi... - gi\|75208775\|ref\|ZP_00709064.1\| COG0502: Biotin synthase and related enzymes [Escherichia coli B171],... sp\|B7ULX2\|BIOB_ECO27 - Biotin synthase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=bioB PE=3 SV=1 gi\|75228359, gi\|... - gi\|75228359\|ref\|ZP_00715007.1\| COG0502: Biotin synthase and related enzymes [Escherichia coli B7A], ... BIOB_ECO24 - Biotin synthase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=bioB PE=3 SV=1 BIOB_ECOHS - Biotin synthase OS=Escherichia coli O9:H4 (strain HS) GN=bioB PE=3 SV=1 gi\|188494744, gi... - gi\|75511378\|ref\|ZP_00734063.1\| COG0502: Biotin synthase and related enzymes [Escherichia coli 53638]... BIOB_SHISS - Biotin synthase OS=Shigella sonnei (strain Ss046) GN=bioB PE=3 SV=1 gi\|75235853 - gi\|75235853\|ref\|ZP_00720008.1\| COG0502: Biotin synthase and related enzymes [Escherichia coli E11001... gi\|75255326, gi\|... - gi\|75255326\|ref\|ZP_00727155.1\| COG0502: Biotin synthase and related enzymes [Escherichia coli E22], ... gi\|194439770, gi... - gi\|83584841\|ref\|ZP_00923500.1\| COG0502: Biotin synthase and related enzymes [Escherichia coli 101-1]... EG10118 - biotin synthase / Biotin synthase; dethiobiotin to biotin pathway; iron-sulfur enzyme BIOB_ECOLC - Biotin synthase OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=bioB PE=3 SV=1 gi\|238860093, gi... - gi\|238900033\|ref\|YP_002925829.1\| biotin synthase [Escherichia coli BW2952], gi\|238860093\|gb\|ACR62091... gi\|251784294, gi... - gi\|251784294\|ref\|YP_002998598.1\| hypothetical protein B21_00759 [Escherichia coli BL21], gi\|24237656... BIOB_ECOSM - Biotin synthase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=bioB PE=3 SV=1 gi\|254287666, gi... - gi\|254287666\|ref\|YP_003053414.1\| biotin synthase [Escherichia coli BL21(DE3)], gi\|253976973\|gb\|ACT42... BIOB_ECODH - Biotin synthase OS=Escherichia coli (strain K12 / DH10B) GN=bioB PE=3 SV=1 gi\|253972753, gi... - gi\|254160852\|ref\|YP_003043960.1\| biotin synthase [Escherichia coli B str. REL606], gi\|253972753\|gb\|A... EG10118 - biotin synthase / Biotin synthase; dethiobiotin to biotin pathway; iron-sulfur enzyme BIOB_ECOLI - Biotin synthase (EC 2.8.1.6) (Biotin synthetase) - Escherichia coli	7.0E-82	[50..370]	[4..316]
gi\|12620127 - gi\|12620127\|gb\|AAG60579.1\|AF250776_3 biotin synthase BioB [uncultured bacterium pCosHE2]	1.0E-81	[50..370]	[4..316]
BIOB_ESCVU - Biotin synthase OS=Escherichia vulneris GN=bioB PE=3 SV=1 BIOB_ENTAG, BIOB... - (Q47862) Biotin synthase (EC 2.8.1.6) (Biotin synthetase), (Q47862) Biotin synthase (EC 2.8.1.6) (Bi...	1.0E-81	[50..368]	[4..314]
gi\|25294055 - pir\|\|F85585 biotin synthesis, sulfur insertion [imported] - Escherichia coli (strain O157:H7, substr... gi\|12513761, gi\|... - gi\|15800526\|ref\|NP_286538.1\| biotin synthase [Escherichia coli O157:H7 EDL933], gi\|12513761\|gb\|AAG55...	2.0E-81	[50..370]	[4..316]
gi\|145425 - gi\|145425\|gb\|AAA23515.1\| biotin synthetase [Escherichia coli]	2.0E-81	[50..370]	[4..316]

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Predicted Domain #1

Region A:
Residues: [1-116]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMSTIYRHLS TARPALTKYA TNAAVKSTTA SSEASTLGAL QYALSLDEPS HSWTKSQLKE  60
   61 IYHTPLLELT HAAQLQHRKW HDPTKVQLCT LMNIKSGGCS EDCKYCAQSS RNDTGL

[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 functions:

Term	Confidence	Notes
biotin synthase activity	4.96431653338581	bayes_pls_golite062009
radical SAM enzyme activity	4.81217611621334	bayes_pls_golite062009
sulfurtransferase activity	3.43375708969779	bayes_pls_golite062009
transferase activity, transferring sulfur-containing groups	2.79703059227143	bayes_pls_golite062009
coproporphyrinogen oxidase activity	1.98937742831419	bayes_pls_golite062009
catalytic activity	1.48331922124015	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor	1.37188743230327	bayes_pls_golite062009
binding	1.19681284943457	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors	1.18901545014659	bayes_pls_golite062009
transferase activity	0.685192555939835	bayes_pls_golite062009
oxidoreductase activity	0.593156857804038	bayes_pls_golite062009
protein binding	0.374124957429525	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [117-262]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KAEKMVKVDE VIKEAEEAKR NGSTRFCLGA AWRDMKGRKS AMKRIQEMVT KVNDMGLETC  60
   61 VTLGMVDQDQ AKQLKDAGLT AYNHNIDTSR EHYSKVITTR TYDDRLQTIK NVQESGIKAC 120
  121 TGGILGLGES EDDHIGFIYT LSNMSP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.522879
Match:	1b5tA_
Description:	Methylenetetrahydrofolate reductase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [263-375]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HPESLPINRL VAIKGTPMAE ELADPKSKKL QFDEILRTIA TARIVMPKAI IRLAAGRYTM  60
   61 KETEQFVCFM AGCNSIFTGK KMLTTMCNGW DEDKAMLAKW GLQPMEAFKY DRS

[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.

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: