YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24050497, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	246 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|24050497, gi|....

Description	E-value	Query Range	Subject Range
gi\|194432691, gi... - gi\|83570261\|ref\|ZP_00921707.1\| COG3034: Uncharacterized protein conserved in bacteria [Shigella dyse...	297.0	[0..1]	[246..1]
gi\|13359708, gi\|... - gi\|15829505\|ref\|NP_308278.1\| hypothetical protein ECs0251 [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|110342053, gi... - gi\|110640461\|ref\|YP_668189.1\| hypothetical protein ECP_0254 [Escherichia coli 536], gi\|110342053\|gb\|... gi\|4902960, gi\|9... - gi\|984580\|dbj\|BAA07586.1\| YafK [Escherichia coli W3110], gi\|89107099\|ref\|AP_000879.1\| hypothetical p... gi\|91209312, gi\|... - gi\|91209312\|ref\|YP_539298.1\| hypothetical protein UTI89_C0264 [Escherichia coli UTI89], gi\|91070886\|... YAFK_ECO57 - Putative L,D-transpeptidase YafK OS=Escherichia coli O157:H7 GN=yafK PE=3 SV=1 gi\|15799929, gi\|... - gi\|15799929\|ref\|NP_285941.1\| hypothetical protein Z0282 [Escherichia coli O157:H7 EDL933], gi\|125129... EG13148 - L,D-transpeptidase-related protein / L,D-transpeptidase-related protein, function unknown gi\|226898967, gi... - gi\|237707757\|ref\|ZP_04538238.1\| conserved hypothetical protein [Escherichia sp. 3_2_53FAA], gi\|22689... gi\|238860270, gi... - gi\|238899616\|ref\|YP_002925412.1\| hypothetical protein BWG_0210 [Escherichia coli BW2952], gi\|2388602... gi\|242376055, gi... - gi\|251783782\|ref\|YP_002998086.1\| hypothetical protein B21_00223 [Escherichia coli BL21], gi\|24237605... gi\|253325796, gi... - gi\|254287143\|ref\|YP_003052891.1\| hypothetical protein ECD_00219 [Escherichia coli BL21(DE3)], gi\|253... gi\|253972241, gi... - gi\|254160340\|ref\|YP_003043448.1\| hypothetical protein ECB_00219 [Escherichia coli B str. REL606], gi... gi\|254791383, gi... - gi\|254791383\|ref\|YP_003076220.1\| secreted protein [Escherichia coli O157:H7 str. TW14359], gi\|254590... gi\|168800338, gi... - gi\|189377308\|gb\|EDU95724.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC508], gi... gi\|189370756, gi... - gi\|189370756\|gb\|EDU89172.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC869], gi... gi\|169887688, gi... - gi\|170079853\|ref\|YP_001729173.1\| hypothetical protein ECDH10B_0206 [Escherichia coli str. K-12 subst... gi\|170021388, gi... - gi\|170021388\|ref\|YP_001726342.1\| hypothetical protein EcolC_3396 [Escherichia coli ATCC 8739], gi\|16... gi\|195938627 - gi\|195938627\|ref\|ZP_03084009.1\| hypothetical protein EscherichcoliO157_19732 [Escherichia coli O157:... EG13148 - L,D-transpeptidase-related protein / L,D-transpeptidase-related protein, function unknown gi\|170680694, gi... - gi\|170680694\|ref\|YP_001742344.1\| hypothetical protein EcSMS35_0235 [Escherichia coli SMS-3-5], gi\|17... gi\|208813045, gi... - gi\|208813045\|ref\|ZP_03254374.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4045... gi\|208808317, gi... - gi\|208808317\|ref\|ZP_03250654.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4206... gi\|168757252, gi... - gi\|189355746\|gb\|EDU74165.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4401], g... gi\|188015594, gi... - gi\|188015594\|gb\|EDU53716.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4113], g... gi\|189361102, gi... - gi\|189361102\|gb\|EDU79521.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4486], g... gi\|168763465, gi... - gi\|189366356\|gb\|EDU84772.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4501], g... gi\|188999628, gi... - gi\|188999628\|gb\|EDU68614.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4076], g... gi\|187768412, gi... - gi\|187768412\|gb\|EDU32256.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4196], g... YAFK_ECOLI - Hypothetical protein yafK precursor - Escherichia coli gi\|75513627, gi\|... - gi\|75513627\|ref\|ZP_00736018.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|218698832, gi... - gi\|218698832\|ref\|YP_002406461.1\| hypothetical protein ECIAI39_0428 [Escherichia coli IAI39], gi\|2183... gi\|74310866, gi\|... - gi\|74310866\|ref\|YP_309285.1\| hypothetical protein SSON_0266 [Shigella sonnei Ss046], gi\|73854343\|gb\|... gi\|218693708, gi... - gi\|218693708\|ref\|YP_002401375.1\| hypothetical protein EC55989_0248 [Escherichia coli 55989], gi\|2183... gi\|190908289, gi... - gi\|75241701\|ref\|ZP_00725538.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|192931151, gi... - gi\|75258771\|ref\|ZP_00730161.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|218430594, gi... - gi\|218703497\|ref\|YP_002411016.1\| hypothetical protein ECUMN_0245 [Escherichia coli UMN026], gi\|21843... gi\|82775615, gi\|... - gi\|82775615\|ref\|YP_401962.1\| hypothetical protein SDY_0250 [Shigella dysenteriae Sd197], gi\|81239763... gi\|82542817, gi\|... - gi\|82542817\|ref\|YP_406764.1\| hypothetical protein SBO_0215 [Shigella boydii Sb227], gi\|81244228\|gb\|A... gi\|187428018, gi... - gi\|75176785\|ref\|ZP_00696901.1\| COG3034: Uncharacterized protein conserved in bacteria [Shigella boyd... gi\|209400375, gi... - gi\|209400375\|ref\|YP_002268852.1\| hypothetical protein ECH74115_0267 [Escherichia coli O157:H7 str. E... gi\|157156909, gi... - gi\|75189331\|ref\|ZP_00702598.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|208818968, gi... - gi\|208818968\|ref\|ZP_03259288.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. EC4042... gi\|215263449, gi... - gi\|215485377\|ref\|YP_002327808.1\| hypothetical protein E2348C_0221 [Escherichia coli O127:H6 str. E23... gi\|83586305, gi\|... - gi\|83586305\|ref\|ZP_00924940.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|209917436, gi... - gi\|209917436\|ref\|YP_002291520.1\| hypothetical protein ECSE_0245 [Escherichia coli SE11], gi\|20991069... gi\|191165732, gi... - gi\|75231174\|ref\|ZP_00717596.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|218359597, gi... - gi\|218552829\|ref\|YP_002385742.1\| hypothetical protein ECIAI1_0264 [Escherichia coli IAI1], gi\|218359... gi\|75237315, gi\|... - gi\|75237315\|ref\|ZP_00721362.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|217324922, gi... - gi\|217324922\|ref\|ZP_03441006.1\| conserved hypothetical protein [Escherichia coli O157:H7 str. TW1458... gi\|157159707, gi... - gi\|75194445\|ref\|ZP_00704515.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|218688119, gi... - gi\|218688119\|ref\|YP_002396331.1\| hypothetical protein ECED1_0258 [Escherichia coli ED1a], gi\|2184256... gi\|75211206, gi\|... - gi\|75211206\|ref\|ZP_00711313.1\| COG3034: Uncharacterized protein conserved in bacteria [Escherichia c... gi\|218557182, gi... - gi\|218557182\|ref\|YP_002390095.1\| hypothetical protein ECS88_0261 [Escherichia coli S88], gi\|21836395... gi\|117622528, gi... - gi\|117622528\|ref\|YP_851441.1\| hypothetical protein APECO1_1743 [Escherichia coli APEC O1], gi\|115511... gi\|124526886, gi... - gi\|124526886\|ref\|ZP_01698768.1\| protein of unknown function DUF949 [Escherichia coli B], gi\|12450158...	297.0	[0..1]	[246..1]
gi\|110613911, gi... - gi\|110804363\|ref\|YP_687883.1\| hypothetical protein SFV_0304 [Shigella flexneri 5 str. 8401], gi\|1106...	296.0	[0..1]	[246..1]
gi\|227884755, gi... - gi\|227884755\|ref\|ZP_04002560.1\| 2-dehydro-3-deoxyphosphooctonate aldolase [Escherichia coli 83972], ... gi\|26106670, gi\|... - gi\|26246272\|ref\|NP_752311.1\| hypothetical protein c0374 [Escherichia coli CFT073], gi\|26106670\|gb\|AA...	295.0	[0..1]	[246..1]
gi\|194713872, gi... - gi\|194738370\|ref\|YP_002113338.1\| hypothetical protein SeSA_A0361 [Salmonella enterica subsp. enteric... gi\|197214900, gi... - gi\|197251197\|ref\|YP_002145294.1\| hypothetical protein SeAg_B0346 [Salmonella enterica subsp. enteric... gi\|197264992, gi... - gi\|197264992\|ref\|ZP_03165066.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica ... gi\|197363490, gi... - gi\|197363490\|ref\|YP_002143127.1\| hypothetical protein SSPA2281 [Salmonella enterica subsp. enterica ... gi\|205344088, gi... - gi\|205344088\|gb\|EDZ30852.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|194445276, gi... - gi\|194445276\|ref\|YP_002039554.1\| hypothetical protein SNSL254_A0351 [Salmonella enterica subsp. ente... gi\|194451114, gi... - gi\|194451114\|ref\|YP_002044296.1\| hypothetical protein SeHA_C0353 [Salmonella enterica subsp. enteric... gi\|194456003, gi... - gi\|194469639\|ref\|ZP_03075623.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica ... gi\|197288566, gi... - gi\|197288566\|gb\|EDY27943.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|168240051, gi... - gi\|205339945\|gb\|EDZ26709.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|168261273, gi... - gi\|205349892\|gb\|EDZ36523.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|238913298 - gi\|238913298\|ref\|ZP_04657135.1\| hypothetical protein SentesTe_19534 [Salmonella enterica subsp. ente... gi\|168465386, gi... - gi\|195631687\|gb\|EDX50207.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|161615518, gi... - gi\|161615518\|ref\|YP_001589483.1\| hypothetical protein SPAB_03290 [Salmonella enterica subsp. enteric... gi\|205322377, gi... - gi\|205322377\|gb\|EDZ10216.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|205328600, gi... - gi\|205328600\|gb\|EDZ15364.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|205333436, gi... - gi\|205333436\|gb\|EDZ20200.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica sero... gi\|213649645 - gi\|213649645\|ref\|ZP_03379698.1\| hypothetical protein SentesTy_21510 [Salmonella enterica subsp. ente... gi\|213852431 - gi\|213852431\|ref\|ZP_03381963.1\| hypothetical protein SentesT_05809 [Salmonella enterica subsp. enter... gi\|56128817, gi\|... - gi\|56414560\|ref\|YP_151635.1\| hypothetical protein SPA2443 [Salmonella enterica subsp. enterica serov... gi\|207855797, gi... - gi\|207855797\|ref\|YP_002242448.1\| hypothetical protein SEN0295 [Salmonella enterica subsp. enterica s... gi\|213162132 - gi\|213162132\|ref\|ZP_03347842.1\| hypothetical protein Salmoneentericaenterica_19903 [Salmonella enter... gi\|213425139 - gi\|213425139\|ref\|ZP_03357889.1\| hypothetical protein SentesTyphi_05232 [Salmonella enterica subsp. e... gi\|213580522 - gi\|213580522\|ref\|ZP_03362348.1\| hypothetical protein SentesTyph_04605 [Salmonella enterica subsp. en... gi\|197938989, gi... - gi\|198244473\|ref\|YP_002214267.1\| hypothetical protein SeD_A0342 [Salmonella enterica subsp. enterica... gi\|200389854, gi... - gi\|200389854\|ref\|ZP_03216465.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica ... gi\|204926845, gi... - gi\|204926845\|ref\|ZP_03218047.1\| conserved hypothetical protein [Salmonella enterica subsp. enterica ... gi\|205271417, gi... - gi\|205351636\|ref\|YP_002225437.1\| hypothetical protein SG0323 [Salmonella enterica subsp. enterica se... gi\|16763695, gi\|... - gi\|16763695\|ref\|NP_459310.1\| putative periplasmic protein [Salmonella typhimurium LT2], gi\|16418814\|... gi\|29138552, gi\|... - gi\|29142920\|ref\|NP_806262.1\| hypothetical protein t2538 [Salmonella enterica subsp. enterica serovar... gi\|25359104, gi\|... - gi\|25359104\|pir\|\|AF0542 probable exported protein STY0357 [imported] - Salmonella enterica subsp. en... gi\|16759307 - gi\|16759307\|ref\|NP_454924.1\| hypothetical protein STY0357 [Salmonella enterica subsp. enterica serov... lcl\|NC_016856.1_... - [gene=yafK] [protein=hypothetical protein] [protein_id=YP_005235987.1] [location=complement(357495.....	280.0	[0..1]	[246..1]
gi\|153950202, gi... - gi\|77631859\|ref\|ZP_00794445.1\| COG3034: Uncharacterized protein conserved in bacteria [Yersinia pseu... gi\|186894254, gi... - gi\|186894254\|ref\|YP_001871366.1\| hypothetical protein YPTS_0928 [Yersinia pseudotuberculosis PB1/+],... Q66E07\|Q66E07_YERPS - Putative exported protein precursor - Yersinia pseudotuberculosis gi\|51588518, gi\|... - gi\|51595236\|ref\|YP_069427.1\| hypothetical protein YPTB0886 [Yersinia pseudotuberculosis IP 32953], g...	269.0	[0..1]	[246..1]
gi\|167421605, gi... - gi\|167421605\|ref\|ZP_02313358.1\| conserved hypothetical protein [Yersinia pestis biovar Orientalis st... gi\|167467189 - gi\|167467189\|ref\|ZP_02331893.1\| hypothetical protein YpesF_04645 [Yersinia pestis FV-1] gi\|149364916, gi... - gi\|149364916\|ref\|ZP_01886951.1\| putative exported protein [Yersinia pestis CA88-4125], gi\|149291329\|... gi\|89105996, gi\|... - gi\|89105996\|ref\|ZP_01178507.1\| COG3034: Uncharacterized protein conserved in bacteria [Yersinia pest... gi\|108808723, gi... - gi\|108808723\|ref\|YP_652639.1\| hypothetical protein YPA_2732 [Yersinia pestis Antiqua], gi\|108780636\|... gi\|165926620, gi... - gi\|165926620\|ref\|ZP_02222452.1\| conserved hypothetical protein [Yersinia pestis biovar Orientalis st... gi\|165989974, gi... - gi\|166010974\|ref\|ZP_02231872.1\| conserved hypothetical protein [Yersinia pestis biovar Antiqua str. ... gi\|166205677, gi... - gi\|166212890\|ref\|ZP_02238925.1\| conserved hypothetical protein [Yersinia pestis biovar Antiqua str. ... gi\|167398650, gi... - gi\|167398650\|ref\|ZP_02304174.1\| conserved hypothetical protein [Yersinia pestis biovar Antiqua str. ... gi\|162353027, gi... - gi\|77634928\|ref\|ZP_00797019.1\| COG3034: Uncharacterized protein conserved in bacteria [Yersinia pest... gi\|25359103 - pir\|\|AH0393 probable exported protein YPO3241 [imported] - Yersinia pestis (strain CO92) gi\|15981177, gi\|... - gi\|218930268\|ref\|YP_002348143.1\| hypothetical protein YPO3241 [Yersinia pestis CO92], gi\|16123400\|re... gi\|229838849, gi... - gi\|229838849\|ref\|ZP_04459008.1\| secreted protein [Yersinia pestis biovar Orientalis str. PEXU2], gi\|... gi\|229895999, gi... - gi\|229895999\|ref\|ZP_04511169.1\| secreted protein [Yersinia pestis Pestoides A], gi\|229700922\|gb\|EEO8... gi\|229899418, gi... - gi\|229899418\|ref\|ZP_04514561.1\| secreted protein [Yersinia pestis biovar Orientalis str. India 195],...	267.0	[0..1]	[246..1]
gi\|45440541, gi\|... - gi\|45440541\|ref\|NP_992080.1\| hypothetical protein YP_0691 [Yersinia pestis biovar Microtus str. 9100...	267.0	[0..1]	[246..5]
gi\|77974387 - gi\|77974387\|ref\|ZP_00829928.1\| COG3034: Uncharacterized protein conserved in bacteria [Yersinia fred...	250.0	[0..1]	[241..1]
gi\|77962897 - gi\|77962897\|ref\|ZP_00826712.1\| COG3034: Uncharacterized protein conserved in bacteria [Yersinia moll...	248.0	[0..1]	[246..1]

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Predicted Domain #1

Region A:
Residues: [1-165]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRKIALILAM LLIPCVSFAG LLGSSSSTTP VSKEYKQQLM GSPVYIQIFK EERTLDLYVK  60
   61 MGEQYQLLDS YKICKYSGGL GPKQRQGDFK SPEGFYSVQR NQLKPDSRYY KAINIGFPNA 120
  121 YDRAHGYEGK YLMIHGDCVS IGCYAMTNQG IDEIFQFVTG ALVFG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.0
Match:	1y7mA
Description:	Crystal Structure of the B. subtilis YkuD protein at 2 A resolution
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [166-246]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QPSVQVSIYP FRMTDANMKR HKYSNFKDFW EQLKPGYDYF EQTRKPPTVS VANGRYVVSK  60
   61 PLSHEVVQPQ LASNYTLPEA K

[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.

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