YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|205323053, gi...
Organism:	Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29
Length:	152 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|205323053, gi....

Description	E-value	Query Range	Subject Range
gi\|115515467, gi... - gi\|117626343\|ref\|YP_859666.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli APEC ... gi\|218429917, gi... - gi\|218692353\|ref\|YP_002400565.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|215489409, gi... - gi\|215489409\|ref\|YP_002331840.1\| DNA-binding transcriptional dual regulator, Fe-Scenter for redox-se... gi\|218561146, gi... - gi\|218561146\|ref\|YP_002394059.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|110644410, gi... - gi\|110644410\|ref\|YP_672140.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli 536],... gi\|91075176, gi\|... - gi\|91213602\|ref\|YP_543588.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli UTI89]... gi\|227836055, gi... - gi\|227886914\|ref\|ZP_04004719.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli 839... gi\|237703637, gi... - gi\|237703637\|ref\|ZP_04534118.1\| redox-sensitive transcriptional activator soxR [Escherichia sp. 3_2_... gi\|26250866, gi\|... - gi\|26250866\|ref\|NP_756906.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli CFT073...	2.0E-34	[1..152]	[1..152]
gi\|82779521, gi\|... - gi\|82779521\|ref\|YP_405870.1\| redox-sensing activator of soxS [Shigella dysenteriae Sd197], gi\|812436... gi\|83587186, gi\|... - gi\|83587186\|ref\|ZP_00925815.1\| COG0789: Predicted transcriptional regulators [Escherichia coli 101-1... gi\|189364145, gi... - gi\|189364145\|gb\|EDU82564.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... SOXR_SHIFL - Redox-sensitive transcriptional activator SoxR OS=Shigella flexneri GN=soxR PE=3 SV=1 gi\|85676815, gi\|... - gi\|89110784\|ref\|AP_004564.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-sensi... gi\|15834299, gi\|... - gi\|15834299\|ref\|NP_313072.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H... gi\|168774421, gi... - gi\|187769900\|gb\|EDU33744.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... gi\|24054632, gi\|... - gi\|24115330\|ref\|NP_709840.1\| redox-sensing activator of soxS [Shigella flexneri 2a str. 301], gi\|240... gi\|193062998, gi... - gi\|75258981\|ref\|ZP_00730349.1\| COG0789: Predicted transcriptional regulators [Escherichia coli E22],... gi\|110617467, gi... - gi\|110807919\|ref\|YP_691439.1\| redox-sensing activator of soxS [Shigella flexneri 5 str. 8401], gi\|11... gi\|189001641, gi... - gi\|189001641\|gb\|EDU70627.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... gi\|30064653, gi\|... - gi\|30064653\|ref\|NP_838824.1\| redox-sensing activator of soxS [Shigella flexneri 2a str. 2457T], gi\|3... gi\|75514822, gi\|... - gi\|75514822\|ref\|ZP_00737051.1\| COG0789: Predicted transcriptional regulators [Escherichia coli 53638... gi\|189374771, gi... - gi\|189374771\|gb\|EDU93187.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... SOXR_ECO57 - Redox-sensitive transcriptional activator SoxR OS=Escherichia coli O157:H7 GN=soxR PE=3 SV=1 gi\|189379112, gi... - gi\|189379112\|gb\|EDU97528.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... EG10957 - redox-sensitive transcriptional activator of soxS; autorepressor / Redox-sensitive transcriptional a... gi\|170021938, gi... - gi\|170021938\|ref\|YP_001726892.1\| MerR family transcriptional regulator [Escherichia coli ATCC 8739],... gi\|15804655, gi\|... - gi\|15804655\|ref\|NP_290696.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H... gi\|169891353, gi... - gi\|170083518\|ref\|YP_001732838.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|194432210, gi... - gi\|194432210\|ref\|ZP_03064498.1\| redox-sensitive transcriptional activator SoxR [Shigella dysenteriae... gi\|75179574, gi\|... - gi\|75179574\|ref\|ZP_00699578.1\| COG0789: Predicted transcriptional regulators [Shigella boydii BS512]... gi\|157156684, gi... - gi\|75188787\|ref\|ZP_00702054.1\| COG0789: Predicted transcriptional regulators [Escherichia coli E2437... gi\|75227981, gi\|... - gi\|75227981\|ref\|ZP_00714672.1\| COG0789: Predicted transcriptional regulators [Escherichia coli B7A],... gi\|124527702, gi... - gi\|124527702\|ref\|ZP_01699137.1\| transcriptional regulator, MerR family [Escherichia coli B], gi\|1245... gi\|193067867, gi... - gi\|75238599\|ref\|ZP_00722588.1\| COG0789: Predicted transcriptional regulators [Escherichia coli E1100... gi\|188017374, gi... - gi\|188017374\|gb\|EDU55496.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... gi\|157163532, gi... - gi\|75197922\|ref\|ZP_00707992.1\| COG0789: Predicted transcriptional regulators [Escherichia coli HS], ... gi\|168755233, gi... - gi\|189357405\|gb\|EDU75824.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... gi\|194426809, gi... - gi\|75211991\|ref\|ZP_00712046.1\| COG0789: Predicted transcriptional regulators [Escherichia coli B171]... gi\|168760912, gi... - gi\|189368636\|gb\|EDU87052.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O157:H7... EG10957 - redox-sensitive transcriptional activator of soxS; autorepressor / Redox-sensitive transcriptional a... gi\|218697772, gi... - gi\|218697772\|ref\|YP_002405439.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|195935847 - gi\|195935847\|ref\|ZP_03081229.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-se... gi\|208727332, gi... - gi\|208807531\|ref\|ZP_03249868.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O15... gi\|208814508, gi... - gi\|208814508\|ref\|ZP_03255837.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O15... gi\|254595483, gi... - gi\|254796083\|ref\|YP_003080920.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|208819190, gi... - gi\|208819190\|ref\|ZP_03259510.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O15... gi\|253975899, gi... - gi\|254163998\|ref\|YP_003047106.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|209158433, gi... - gi\|209397033\|ref\|YP_002273603.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O1... gi\|254037062, gi... - gi\|254037062\|ref\|ZP_04871139.1\| redox-sensitive transcriptional activator SoxR [Escherichia sp. 1_1_... gi\|209914807, gi... - gi\|209921548\|ref\|YP_002295632.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli SE... gi\|253775308, gi... - gi\|254290749\|ref\|YP_003056497.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|217322669, gi... - gi\|217326448\|ref\|ZP_03442532.1\| redox-sensitive transcriptional activator SoxR [Escherichia coli O15... gi\|251787318, gi... - gi\|251787318\|ref\|YP_003001622.1\| hypothetical protein B21_03895 [Escherichia coli BL21], gi\|24237959... gi\|218556621, gi... - gi\|218556621\|ref\|YP_002389535.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... gi\|238903173, gi... - gi\|238903173\|ref\|YP_002928969.1\| DNA-binding transcriptional dual regulator, Fe-S center for redox-s... SOXR_ECOLI - Redox-sensitive transcriptional activator soxR - Escherichia coli	3.0E-34	[1..152]	[1..152]
gi\|619231 - gi\|619231\|gb\|AAB31680.1\| SoxR [Escherichia coli]	4.0E-34	[1..152]	[1..152]
gi\|75241103, gi\|... - gi\|75241103\|ref\|ZP_00724977.1\| COG0789: Predicted transcriptional regulators [Escherichia coli F11],...	4.0E-34	[1..152]	[1..152]
gi\|1421772\|gb\|AA... - SoxR gi\|1421772 - gi\|1421772\|gb\|AAB03869.1\| SoxR	5.0E-34	[1..152]	[1..152]
gi\|83632335, gi\|... - gi\|83644292\|ref\|YP_432727.1\| redox-sensitive transcriptional activator SoxR [Hahella chejuensis KCTC...	5.0E-34	[10..152]	[11..153]
gi\|56676966, gi\|... - gi\|56695229\|ref\|YP_165577.1\| redox-sensitive transcriptional activator SoxR [Ruegeria pomeroyi DSS-3...	6.0E-34	[7..152]	[2..147]
gi\|58700302, gi\|... - gi\|66735141\|gb\|AAY53811.1\| SoxR [Sphingopyxis alaskensis RB2256], gi\|58700302\|gb\|AAW78364.2\| SoxR [S...	1.0E-33	[1..152]	[1..152]
gi\|86166056, gi\|... - gi\|87118422\|ref\|ZP_01074321.1\| SoxR protein [Marinomonas sp. MED121], gi\|86166056\|gb\|EAQ67322.1\| Sox...	1.0E-33	[12..150]	[3..141]
gi\|111278973, gi... - gi\|111620576\|ref\|ZP_01407550.1\| redox-sensitive transcriptional activator SoxR [Acidovorax avenae su...	3.0E-33	[2..151]	[96..245]

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Predicted Domain #1

Region A:
Residues: [1-152]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEKKSPRLKA LLTPGEVAKR SGVAVSALHF YESKGLITSI RNSGNQRRYK RDVLRYVAII  60
   61 KIAQRIGIPL ATIGDAFGIL PEGHTLSAKE WKQLSSQWRE ELDRRIHTLV ALRDELDGCI 120
  121 GCGCLSRSDC PLRNPGDRLG EHGTGARLLE DD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	29.154902
Match:	1q05A
Description:	Crystal structure of the Cu(I) form of E. coli CueR, a copper efflux regulator
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	3.40729334364274	bayes_pls_golite062009
DNA binding	2.05877861880033	bayes_pls_golite062009
nucleic acid binding	1.99474406643819	bayes_pls_golite062009
transcription factor activity	1.84836087644732	bayes_pls_golite062009
binding	1.32395331736751	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: