YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24054261, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	297 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|24054261, gi|....

Description	E-value	Query Range	Subject Range
gi\|110807625, gi... - gi\|110807625\|ref\|YP_691145.1\| putative ARAC-type regulatory protein [Shigella flexneri 5 str. 8401],...	216.0	[0..1]	[297..1]
gi\|209921157, gi... - gi\|209921157\|ref\|YP_002295241.1\| putative transcriptional regulator [Escherichia coli SE11], gi\|2099... gi\|170083187, gi... - gi\|170083187\|ref\|YP_001732507.1\| DNA-binding transcriptional regulator [Escherichia coli str. K-12 s... gi\|16131550\|ref\|... - predicted DNA-binding transcriptional regulator [Escherichia coli str. K-12 substr. MG1655] gi\|16131550, gi\|... - gi\|1790114\|gb\|AAC76703.1\| predicted DNA-binding transcriptional regulator [Escherichia coli str. K-1... gi\|242379220, gi... - gi\|251786947\|ref\|YP_003001251.1\| hypothetical protein B21_03507 [Escherichia coli BL21], gi\|24237922... gi\|238902773, gi... - gi\|238902773\|ref\|YP_002928569.1\| putative DNA-binding transcriptional regulator [Escherichia coli BW... gi\|218697404, gi... - gi\|218697404\|ref\|YP_002405071.1\| putative DNA-binding transcriptional regulator [Escherichia coli 55... YIDL_ECOLI - Putative HTH-type transcriptional regulator yidL - Escherichia coli gi\|218363016, gi... - gi\|218556247\|ref\|YP_002389161.1\| putative DNA-binding transcriptional regulator [Escherichia coli IA... gi\|253979690, gi... - gi\|254290383\|ref\|YP_003056131.1\| predicted DNA-binding transcriptional regulator [Escherichia coli B... gi\|89110332, gi\|... - gi\|89110332\|ref\|AP_004112.1\| predicted DNA-binding transcriptional regulator [Escherichia coli str. ...	215.0	[0..1]	[297..11]
gi\|13364096, gi\|... - gi\|15833875\|ref\|NP_312648.1\| putative ARAC-type regulatory protein [Escherichia coli O157:H7], gi\|13... gi\|25391717, gi\|... - pir\|\|G86052 probable ARAC-type regulatory protein yidL [imported] - Escherichia coli (strain O157:H7... gi\|12518522, gi\|... - gi\|15804280\|ref\|NP_290319.1\| putative ARAC-type regulatory protein [Escherichia coli O157:H7 EDL933]... gi\|254595089, gi... - gi\|254795689\|ref\|YP_003080526.1\| predicted DNA-binding transcriptional regulator [Escherichia coli O... gi\|13364096, gi\|... - gi\|15833875\|ref\|NP_312648.1\| putative ARAC-type regulatory protein [Escherichia coli O157:H7 str. Sa...	212.0	[0..1]	[297..11]
gi\|26250424, gi\|... - gi\|26250424\|ref\|NP_756464.1\| putative transcriptional regulator YidL [Escherichia coli CFT073], gi\|2...	202.0	[0..1]	[284..11]
gi\|218367527, gi... - gi\|218560758\|ref\|YP_002393671.1\| putative DNA-binding transcriptional regulator [Escherichia coli S8... gi\|237703482, gi... - gi\|237703482\|ref\|ZP_04533963.1\| transcriptional regulator YidL [Escherichia sp. 3_2_53FAA], gi\|22690... gi\|117625960, gi... - gi\|117625960\|ref\|YP_859283.1\| DNA-binding transcriptional regulator YidL [Escherichia coli APEC O1],... gi\|91074780, gi\|... - gi\|91213206\|ref\|YP_543192.1\| transcriptional regulator YidL [Escherichia coli UTI89], gi\|91074780\|gb...	201.0	[0..1]	[284..11]
gi\|110345619, gi... - gi\|110644027\|ref\|YP_671757.1\| transcriptional regulator YidL [Escherichia coli 536], gi\|110345619\|gb... gi\|191170388, gi... - gi\|191170388\|ref\|ZP_03031941.1\| transcriptional regulator, AraC family protein [Escherichia coli F11...	198.0	[0..1]	[284..1]
gi\|75258221 - gi\|75258221\|ref\|ZP_00729669.1\| COG2207: AraC-type DNA-binding domain-containing proteins [Escherichi... gi\|75236404 - gi\|75236404\|ref\|ZP_00720500.1\| COG2207: AraC-type DNA-binding domain-containing proteins [Escherichi... gi\|75231051 - gi\|75231051\|ref\|ZP_00717486.1\| COG2207: AraC-type DNA-binding domain-containing proteins [Escherichi... gi\|75210707 - gi\|75210707\|ref\|ZP_00710848.1\| COG2207: AraC-type DNA-binding domain-containing proteins [Escherichi... gi\|75188438 - gi\|75188438\|ref\|ZP_00701705.1\| COG2207: AraC-type DNA-binding domain-containing proteins [Escherichi... gi\|83588453 - gi\|83588453\|ref\|ZP_00927077.1\| COG2207: AraC-type DNA-binding domain-containing proteins [Escherichi...	185.0	[0..27]	[297..2]
gi\|71279582, gi\|... - gi\|71279582\|ref\|YP_269560.1\| AraC family substrate binding transcriptional regulator [Colwellia psyc...	156.0	[0..32]	[286..10]
gi\|29348319, gi\|... - gi\|29348319\|ref\|NP_811822.1\| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482], gi\|2... gi\|253569315, gi... - gi\|253569315\|ref\|ZP_04846725.1\| transcriptional regulator [Bacteroides sp. 1_1_6], gi\|251841334\|gb\|E...	151.0	[0..5]	[287..1]
gi\|50590983, gi\|... - gi\|81097031\|ref\|ZP_00875347.1\| Helix-turn-helix, AraC type:Arac protein, arabinose-binding/dimerisat...	151.0	[0..51]	[288..30]

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Predicted Domain #1

Region A:
Residues: [1-114]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNGKLQSSDV KNETPYNIPL LINENVISSG ISLISLWHTY ADEHYRVIWP RDKKKPLIAN  60
   61 SWVAVYTVQG CGKILLKNGE QITLHSNCII FLKPMDIHSY HCEGLVWEQY WMEF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.69897
Match:	1xjaA
Description:	Apo form of the Y31V mutant dimerization domain fragment of Escherichia coli regulatory protein AraC
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [115-297]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TPTSMMDIPV GQQSVIYNGE IYNQELTEVA ELITSPEAIK NNLAVAFLTK IIYQWICLMS  60
   61 ADGKKDPQRR QIEKLIATLH ASLQQRWSVA DMAATIPCSE AWLRRLFLRY TGKTPKEYYL 120
  121 DARLDLALSL LKQQGNSVGE VADTLNFFDS FHFSKAFKHK FGYAPSAVLK NTDQHPTDAS 180
  181 PHN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.154902
Match:	1wpkA
Description:	Methylated Form of N-terminal Transcriptional Regulator Domain of Escherichia Coli Ada Protein
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