YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24113589, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	156 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|24113589, gi|....

Description	E-value	Query Range	Subject Range
gi\|82776194, gi\|... - gi\|82776194\|ref\|YP_402543.1\| cytochrome c-type protein [Shigella dysenteriae Sd197], gi\|81240342\|gb\|...	254.0	[0..1]	[156..1]
gi\|75196245 - gi\|75196245\|ref\|ZP_00706315.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Escherichia col... gi\|75211619 - gi\|75211619\|ref\|ZP_00711698.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Escherichia col... gi\|75231459 - gi\|75231459\|ref\|ZP_00717828.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Escherichia col... gi\|75259675 - gi\|75259675\|ref\|ZP_00730977.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Escherichia col... gi\|81245974, gi\|... - gi\|82544563\|ref\|YP_408510.1\| cytochrome c-type protein [Shigella boydii Sb227], gi\|81245974\|gb\|ABB66... gi\|26248587, gi\|... - gi\|26248587\|ref\|NP_754627.1\| Diheme cytochrome c napB precursor [Escherichia coli CFT073], gi\|261089... gi\|227887260, gi... - gi\|227887260\|ref\|ZP_04005065.1\| periplasmic nitrate reductase electron donor subunit [Escherichia co... gi\|83588187 - gi\|83588187\|ref\|ZP_00926812.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Escherichia col... gi\|75176165 - gi\|75176165\|ref\|ZP_00696323.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Shigella boydii... gi\|75186999 - gi\|75186999\|ref\|ZP_00700266.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Escherichia col...	253.0	[0..1]	[156..1]
gi\|188494955, gi... - gi\|188494955\|ref\|ZP_03002225.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... EG12061 - nitrate reductase, small, cytochrome C550 subunit, periplasmic / Nitrate reductase, periplasmic gi\|191169948, gi... - gi\|191169948\|ref\|ZP_03031502.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... gi\|193068256, gi... - gi\|193068256\|ref\|ZP_03049220.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... gi\|254794102, gi... - gi\|254794102\|ref\|YP_003078939.1\| nitrate reductase, small, cytochrome C550 subunit, periplasmic [Esc... gi\|195935583 - gi\|195935583\|ref\|ZP_03080965.1\| diheme cytochrome c550 [Escherichia coli O157:H7 str. EC4024] gi\|168787112, gi... - gi\|189372856\|gb\|EDU91272.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|168802418, gi... - gi\|189375604\|gb\|EDU94020.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|170019483, gi... - gi\|170019483\|ref\|YP_001724437.1\| citrate reductase cytochrome c-type subunit [Escherichia coli ATCC ... gi\|170081823, gi... - gi\|170081823\|ref\|YP_001731143.1\| nitrate reductase, small, cytochrome C550 subunit, periplasmic [Esc... gi\|168764698, gi... - gi\|189365345\|gb\|EDU83761.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|168767826, gi... - gi\|189362894\|gb\|EDU81313.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|187771299, gi... - gi\|187771299\|gb\|EDU35143.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|189002146, gi... - gi\|189002146\|gb\|EDU71132.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... NAPB_ECOLI - Diheme cytochrome c napB precursor - Escherichia coli gi\|161986501 - gi\|161986501\|ref\|YP_311143.2\| diheme cytochrome c550 [Shigella sonnei Ss046] gi\|162138405 - gi\|162138405\|ref\|YP_541479.2\| diheme cytochrome c550 [Escherichia coli UTI89] gi\|188016097, gi... - gi\|188016097\|gb\|EDU54219.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|168754953, gi... - gi\|189357758\|gb\|EDU76177.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escherichia ... gi\|38704063 - gi\|38704063\|ref\|NP_311119.2\| citrate reductase cytochrome c-type subunit [Escherichia coli O157:H7 s... gi\|110344003, gi... - gi\|110642411\|ref\|YP_670141.1\| citrate reductase cytochrome c-type subunit [Escherichia coli 536], gi... gi\|110615727, gi... - gi\|110806179\|ref\|YP_689699.1\| diheme cytochrome c550 [Shigella flexneri 5 str. 8401], gi\|110615727\|g... gi\|218700672, gi... - gi\|218700672\|ref\|YP_002408301.1\| citrate reductase cytochrome c-type subunit [Escherichia coli IAI39... gi\|218432829, gi... - gi\|218705732\|ref\|YP_002413251.1\| citrate reductase cytochrome c-type subunit [Escherichia coli UMN02... gi\|124526372, gi... - gi\|124526372\|ref\|ZP_01698325.1\| Nitrate reductase cytochrome c-type subunit (NapB) [Escherichia coli... gi\|215265493, gi... - gi\|215487421\|ref\|YP_002329852.1\| citrate reductase cytochrome c-type subunit [Escherichia coli O127:... gi\|217319175, gi... - gi\|217326808\|ref\|ZP_03442891.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... gi\|38704063 - gi\|38704063\|ref\|NP_311119.2\| cytochrome c-type protein [Escherichia coli O157:H7] gi\|218365889, gi... - gi\|218559120\|ref\|YP_002392033.1\| citrate reductase cytochrome c-type subunit [Escherichia coli S88],... gi\|218427929, gi... - gi\|218690365\|ref\|YP_002398577.1\| citrate reductase cytochrome c-type subunit [Escherichia coli ED1a]... gi\|208807888, gi... - gi\|208807888\|ref\|ZP_03250225.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... gi\|208814227, gi... - gi\|208814227\|ref\|ZP_03255556.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... gi\|208739694, gi... - gi\|208819571\|ref\|ZP_03259891.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheric... gi\|209400531, gi... - gi\|209400531\|ref\|YP_002271615.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Escheri... NAPB_SHIFL - Periplasmic nitrate reductase, electron transfer subunit OS=Shigella flexneri GN=napB PE=3 SV=1 gi\|30041896, gi\|... - gi\|30063643\|ref\|NP_837814.1\| diheme cytochrome c550 [Shigella flexneri 2a str. 2457T], gi\|30041896\|g... gi\|161367570 - gi\|161367570\|ref\|NP_288783.2\| diheme cytochrome c550 [Escherichia coli O157:H7 EDL933] gi\|89109019, gi\|... - gi\|89109019\|ref\|AP_002799.1\| nitrate reductase, small, cytochrome C550 subunit, periplasmic [Escheri... gi\|56480065, gi\|... - gi\|56480065\|ref\|NP_708099.2\| diheme cytochrome c550 [Shigella flexneri 2a str. 301], gi\|56383616\|gb\|... EG12061 - nitrate reductase, small, cytochrome C550 subunit, periplasmic / Nitrate reductase, periplasmic gi\|238861907, gi... - gi\|238901377\|ref\|YP_002927173.1\| nitrate reductase, small, cytochrome C550 subunit, periplasmic [Esc...	240.0	[0..8]	[156..1]
gi\|16503483, gi\|... - gi\|25321693\|pir\|\|AF0788 cytochrome c-type protein NapB precursor [imported] - Salmonella enterica su... gi\|16761184 - gi\|16761184\|ref\|NP_456801.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar Typ... gi\|16765584, gi\|... - gi\|16765584\|ref\|NP_461199.1\| diheme cytochrome c550 [Salmonella typhimurium LT2], gi\|16420794\|gb\|AAL... gi\|29136748, gi\|... - gi\|29141122\|ref\|NP_804464.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar Typ... gi\|214001539 - gi\|214001539\|ref\|ZP_03412274.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|213865002 - gi\|213865002\|ref\|ZP_03387121.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|213646502 - gi\|213646502\|ref\|ZP_03376555.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|213618667 - gi\|213618667\|ref\|ZP_03372493.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|62128464, gi\|... - gi\|62180831\|ref\|YP_217248.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar Cho... gi\|56127103, gi\|... - gi\|56412846\|ref\|YP_149921.1\| citrate reductase cytochrome c-type subunit [Salmonella enterica subsp.... gi\|238913922 - gi\|238913922\|ref\|ZP_04657759.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|197290547, gi... - gi\|197290547\|gb\|EDY29902.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... gi\|168229615, gi... - gi\|205335913\|gb\|EDZ22677.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... gi\|167992587, gi... - gi\|205329248\|gb\|EDZ16012.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... gi\|167549756, gi... - gi\|205325273\|gb\|EDZ13112.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... gi\|168818020, gi... - gi\|205344821\|gb\|EDZ31585.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella ... gi\|195631531, gi... - gi\|195631531\|gb\|EDX50091.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... gi\|168261734, gi... - gi\|205349330\|gb\|EDZ35961.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... gi\|205338489, gi... - gi\|205338489\|gb\|EDZ25253.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonella e... lcl\|NC_016856.1_... - [gene=napB] [protein=diheme cytochrome c550] [protein_id=YP_005238322.1] [location=complement(240584... gi\|161613029, gi... - gi\|161613029\|ref\|YP_001586994.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar... gi\|207857676, gi... - gi\|207857676\|ref\|YP_002244327.1\| citrate reductase cytochrome c-type subunit [Salmonella enterica su... gi\|205273155, gi... - gi\|205353374\|ref\|YP_002227175.1\| citrate reductase cytochrome c-type subunit [Salmonella enterica su... gi\|204929218, gi... - gi\|204929218\|ref\|ZP_03220361.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonel... gi\|200386988, gi... - gi\|200386988\|ref\|ZP_03213600.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonel... gi\|213426900 - gi\|213426900\|ref\|ZP_03359650.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|213417123 - gi\|213417123\|ref\|ZP_03350267.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|213051714 - gi\|213051714\|ref\|ZP_03344592.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|213024051 - gi\|213024051\|ref\|ZP_03338498.1\| diheme cytochrome c550 [Salmonella enterica subsp. enterica serovar ... gi\|194712356, gi... - gi\|194736854\|ref\|YP_002115331.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmone... gi\|194457215, gi... - gi\|194470851\|ref\|ZP_03076835.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonel... gi\|194409563, gi... - gi\|194451259\|ref\|YP_002046311.1\| citrate reductase cytochrome c-type subunit [Salmonella enterica su... gi\|194403655, gi... - gi\|194444992\|ref\|YP_002041519.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmone... gi\|197940753, gi... - gi\|198246237\|ref\|YP_002216327.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmone... gi\|197361779, gi... - gi\|197361779\|ref\|YP_002141415.1\| citrate reductase cytochrome c-type subunit [Salmonella enterica su... gi\|197244264, gi... - gi\|197266009\|ref\|ZP_03166083.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmonel... gi\|197212974, gi... - gi\|197249271\|ref\|YP_002147214.1\| periplasmic nitrate reductase, diheme cytochrome c subunit [Salmone...	235.0	[0..8]	[156..1]
gi\|77960882 - gi\|77960882\|ref\|ZP_00824736.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Yersinia mollar...	225.0	[0..5]	[156..3]
gi\|77977005 - gi\|77977005\|ref\|ZP_00832467.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Yersinia interm...	224.0	[0..5]	[156..3]
gi\|238723681, gi... - gi\|77974598\|ref\|ZP_00830137.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Yersinia freder...	221.0	[0..5]	[156..3]
gi\|166212514, gi... - gi\|166212514\|ref\|ZP_02238549.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|229895698, gi... - gi\|229895698\|ref\|ZP_04510869.1\| cytochrome C-type protein NapB precursor [Yersinia pestis Pestoides ... gi\|166011142, gi... - gi\|166011142\|ref\|ZP_02232040.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|229899198, gi... - gi\|229899198\|ref\|ZP_04514341.1\| cytochrome C-type protein NapB precursor [Yersinia pestis biovar Ori... gi\|167424559, gi... - gi\|167424559\|ref\|ZP_02316312.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|166958400, gi... - gi\|167422693\|ref\|ZP_02314446.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|229694998, gi... - gi\|229838632\|ref\|ZP_04458791.1\| cytochrome C-type protein NapB precursor [Yersinia pestis biovar Ori... gi\|162418833, gi... - gi\|162418833\|ref\|YP_001607179.1\| diheme cytochrome c550 [Yersinia pestis Angola], gi\|162351648\|gb\|AB... gi\|145599416, gi... - gi\|145599416\|ref\|YP_001163492.1\| diheme cytochrome c550 [Yersinia pestis Pestoides F], gi\|145211112\|... gi\|161511348 - gi\|161511348\|ref\|NP_993975.2\| diheme cytochrome c550 [Yersinia pestis biovar Microtus str. 91001] gi\|165916229, gi... - gi\|165936084\|ref\|ZP_02224654.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|165921264, gi... - gi\|165926913\|ref\|ZP_02222745.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|229681705, gi... - gi\|229901776\|ref\|ZP_04516898.1\| cytochrome C-type protein NapB precursor [Yersinia pestis Nepal516],... gi\|108808222, gi... - gi\|108808222\|ref\|YP_652138.1\| diheme cytochrome c550 [Yersinia pestis Antiqua], gi\|108780135\|gb\|ABG1... gi\|161484836 - gi\|161484836\|ref\|NP_668766.2\| diheme cytochrome c550 [Yersinia pestis KIM] Q668I1\|Q668I1_YERPS - Cytochrome C-type protein NapB precursor - Yersinia pseudotuberculosis gi\|51597075, gi\|... - gi\|51597075\|ref\|YP_071266.1\| diheme cytochrome c550 [Yersinia pseudotuberculosis IP 32953], gi\|51590... gi\|218930082 - gi\|218930082\|ref\|YP_002347957.1\| citrate reductase cytochrome c-type subunit [Yersinia pestis CO92] gi\|169750164, gi... - gi\|170023630\|ref\|YP_001720135.1\| citrate reductase cytochrome c-type subunit [Yersinia pseudotubercu...	220.0	[0..5]	[156..2]
gi\|25321692 - pir\|\|AD0369 cytochrome C-type protein NapB precursor [imported] - Yersinia pestis (strain CO92) gi\|153949006, gi... - gi\|153949006\|ref\|YP_001400254.1\| citrate reductase cytochrome c-type subunit [Yersinia pseudotubercu... gi\|149365102, gi... - gi\|149365102\|ref\|ZP_01887137.1\| cytochrome C-type protein NapB precursor [Yersinia pestis CA88-4125]... gi\|115348693, gi... - gi\|16123214\|ref\|NP_406527.1\| cytochrome C-type protein NapB precursor [Yersinia pestis CO92], gi\|159... gi\|22125343, gi\|... - gi\|22125343\|ref\|NP_668766.1\| cytochrome c-type protein [Yersinia pestis KIM], gi\|21958223\|gb\|AAM8501... gi\|167467007 - gi\|167467007\|ref\|ZP_02331711.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer... gi\|167398640, gi... - gi\|167398640\|ref\|ZP_02304164.1\| periplasmic nitrate reductase, diheme cytochrome c subunit NapB [Yer...	219.0	[0..8]	[156..1]
gi\|238715267, gi... - gi\|77959001\|ref\|ZP_00823026.1\| COG3043: Nitrate reductase cytochrome c-type subunit [Yersinia bercov...	219.0	[0..7]	[156..1]

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Predicted Domain #1

Region A:
Residues: [1-156]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEFGSEIMKS HDLKKALCQW TAMLALVVSG AVWAANGVDF SQSPEVSGTQ EGAIRMPKEQ  60
   61 DRMPLNYVNQ PPMIPHSVEG YQVTTNTNRC LQCHGVESYR TTGAPRISPT HFMDSDGKVG 120
  121 AEVAPRRYFC LQCHVPQADT APIVGNTFTP SKGYGK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	45.69897
Match:	1jniA
Description:	Periplasmic nitrate reductase subunit NapB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on other nitrogenous compounds as donors	12.7591230788202	bayes_pls_golite062009
nitrate reductase activity	11.6275376808252	bayes_pls_golite062009
catalytic activity	0.202301774983557	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: