YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|110808168, gi...
Organism:	Shigella flexneri 5 str. 8401
Length:	287 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 gi|110808168, gi....

Description	E-value	Query Range	Subject Range
gi\|75239558, gi\|... - gi\|75239558\|ref\|ZP_00723528.1\| COG1180: Pyruvate-formate lyase-activating enzyme [Escherichia coli F... gi\|110346408, gi... - gi\|110644816\|ref\|YP_672546.1\| hypothetical protein ECP_4763 [Escherichia coli 536], gi\|110346408\|gb\|... gi\|91214094, gi\|... - gi\|91214094\|ref\|YP_544080.1\| hypothetical protein UTI89_C5149 [Escherichia coli UTI89], gi\|91075668\|... gi\|115515861, gi... - gi\|117626737\|ref\|YP_860060.1\| hypothetical protein APECO1_2002 [Escherichia coli APEC O1], gi\|115515...	214.0	[0..1]	[287..1]
gi\|209748918, gi... - pir\|\|D86137 probable activating enzyme yjjW [imported] - Escherichia coli (strain O157:H7, substrain... gi\|12519406, gi\|... - gi\|15804951\|ref\|NP_290993.1\| putative activating enzyme [Escherichia coli O157:H7 EDL933], gi\|125194... gi\|15834591, gi\|... - gi\|15834591\|ref\|NP_313364.1\| putative activating enzyme [Escherichia coli O157:H7], gi\|13364815\|dbj\|... gi\|168762730, gi... - gi\|189366965\|gb\|EDU85381.1\| radical SAM domain protein [Escherichia coli O157:H7 str. EC4501], gi\|16... gi\|168785022, gi... - gi\|189374932\|gb\|EDU93348.1\| radical SAM domain protein [Escherichia coli O157:H7 str. EC869], gi\|168... gi\|15834591, gi\|... - gi\|15834591\|ref\|NP_313364.1\| putative activating enzyme [Escherichia coli O157:H7 str. Sakai], gi\|13... gi\|217321348, gi... - gi\|217325127\|ref\|ZP_03441211.1\| radical SAM domain protein [Escherichia coli O157:H7 str. TW14588], ...	213.0	[0..1]	[287..1]
YJJW_ECOLI - Hypothetical protein yjjW - Escherichia coli gi\|238863062, gi... - gi\|238903466\|ref\|YP_002929262.1\| putative pyruvate formate lyase activating enzyme [Escherichia coli... EG12599 - putative pyruvate formate lyase activating enzyme / Predicted YjjI activase gi\|170083765, gi... - gi\|170083765\|ref\|YP_001733085.1\| pyruvate formate lyase activating enzyme [Escherichia coli str. K-1... gi\|253980365, gi... - gi\|254291056\|ref\|YP_003056806.1\| predicted pyruvate formate lyase activating enzyme [Escherichia col... gi\|251787628, gi... - gi\|251787628\|ref\|YP_003001932.1\| hypothetical protein B21_04221 [Escherichia coli BL21], gi\|24237990... EG12599 - putative pyruvate formate lyase activating enzyme / Predicted YjjI activase gi\|253976208, gi... - gi\|254164305\|ref\|YP_003047415.1\| predicted pyruvate formate lyase activating enzyme [Escherichia col... gi\|85677118, gi\|... - gi\|89111087\|ref\|AP_004867.1\| predicted pyruvate formate lyase activating enzyme [Escherichia coli st... gi\|218368379, gi... - gi\|218561610\|ref\|YP_002394523.1\| putative pyruvate formate lyase activating enzyme [Escherichia coli...	212.0	[0..1]	[287..1]
gi\|192926734, gi... - gi\|75256291\|ref\|ZP_00727963.1\| COG1180: Pyruvate-formate lyase-activating enzyme [Escherichia coli E... gi\|75209583, gi\|... - gi\|75209583\|ref\|ZP_00709801.1\| COG1180: Pyruvate-formate lyase-activating enzyme [Escherichia coli B...	212.0	[0..1]	[287..1]
gi\|254037390, gi... - gi\|254037390\|ref\|ZP_04871467.1\| radical SAM domain-containing protein [Escherichia sp. 1_1_43], gi\|2... gi\|188491026, gi... - gi\|75515570\|ref\|ZP_00737727.1\| COG1180: Pyruvate-formate lyase-activating enzyme [Escherichia coli 5... gi\|170021661, gi... - gi\|170021661\|ref\|YP_001726615.1\| radical SAM domain-containing protein [Escherichia coli ATCC 8739],... gi\|124499239, gi... - gi\|124530348\|ref\|ZP_01701034.1\| Radical SAM domain protein [Escherichia coli B], gi\|124499239\|gb\|EAY...	211.0	[0..1]	[287..1]
gi\|83585287, gi\|... - gi\|83585287\|ref\|ZP_00923935.1\| COG1180: Pyruvate-formate lyase-activating enzyme [Escherichia coli 1...	210.0	[0..1]	[287..1]
gi\|193070595, gi... - gi\|75234542\|ref\|ZP_00718883.1\| COG1180: Pyruvate-formate lyase-activating enzyme [Escherichia coli E...	210.0	[0..1]	[287..1]
gi\|26251268, gi\|... - gi\|26251268\|ref\|NP_757308.1\| hypothetical protein c5462 [Escherichia coli CFT073], gi\|26111701\|gb\|AA...	209.0	[0..1]	[287..1]
gi\|16763360 - gi\|16763360\|ref\|NP_458977.1\| hypothetical protein STY4916 [Salmonella enterica subsp. enterica serov... gi\|213427569 - gi\|213427569\|ref\|ZP_03360319.1\| hypothetical protein SentesTyphi_19441 [Salmonella enterica subsp. e... gi\|213613227 - gi\|213613227\|ref\|ZP_03371053.1\| hypothetical protein SentesTyp_12389 [Salmonella enterica subsp. ent... gi\|213647464 - gi\|213647464\|ref\|ZP_03377517.1\| hypothetical protein SentesTy_09332 [Salmonella enterica subsp. ente... gi\|214002586 - gi\|214002586\|ref\|ZP_03413321.1\| hypothetical protein Salmonellentericaenterica_20488 [Salmonella ent... gi\|29144838, gi\|... - gi\|29144838\|ref\|NP_808180.1\| hypothetical protein t4608 [Salmonella enterica subsp. enterica serovar... gi\|25285904, gi\|... - gi\|25285904\|pir\|\|AI1072 conserved hypothetical protein STY4916 [imported] - Salmonella enterica subs...	208.0	[0..1]	[287..1]
gi\|200389241, gi... - gi\|200389241\|ref\|ZP_03215853.1\| pyruvate formate lyase-activating enzyme [Salmonella enterica subsp.... gi\|167989806, gi... - gi\|205331531\|gb\|EDZ18295.1\| pyruvate formate lyase-activating enzyme [Salmonella enterica subsp. ent... lcl\|NC_016856.1_... - [gene=yjjW] [protein=pyruvate formate lyase-activating enzyme] [protein_id=YP_005240908.1] [location... gi\|197263762, gi... - gi\|197263762\|ref\|ZP_03163836.1\| pyruvate formate lyase activating enzyme [Salmonella enterica subsp.... gi\|16767806, gi\|... - gi\|16767806\|ref\|NP_463421.1\| pyruvate formate lyase-activating enzyme [Salmonella typhimurium LT2], ...	208.0	[0..1]	[287..1]

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Predicted Domain #1

Region A:
Residues: [1-96]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNSRCALVSK IIPFSCVDGP GSRLALFLQG CNLRCKNCHN PWTMGRCNDC GECVPQCPHQ  60
   61 ALQIVDGKVV WNAVVCEQCD TCLKMCPQHA TPMAQS

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.52
Match:	1h98A
Description:	Ferredoxin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity	1.75938320394291	bayes_pls_golite062009
electron carrier activity	1.37623238398153	bayes_pls_golite062009
NADH dehydrogenase activity	1.07237794141661	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	0.890500444803156	bayes_pls_golite062009
catalytic activity	0.851778834263757	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	0.596786713233954	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	0.59064478180058	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.305357798033586	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [97-287]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSVDEVLSHV RKAVLFIEGI TVSGGEATTQ LPFVVALFTA IKNDPQLRHL TCLVDSNGML  60
   61 SETGWEKLLP VCDGAMLDLK AWGSECHQQL TGRDNQQIKR SIYLLAERGK LAELRLLMIP 120
  121 GQVDYLQHIE ELAAFIKGLG DVPVRLNAFH AHGVYGEAQS WASATPEDVE PLADALKVRG 180
  181 VSRLIFPALY L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	21.39794
Match:	2fb2A
Description:	No description for 2fb2A was found.

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: