YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213161308
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E00-7866
Length:	392 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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|213161308.

Description	E-value	Query Range	Subject Range
gi\|56129346, gi\|... - gi\|56415089\|ref\|YP_152164.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica subsp.... gi\|205273847, gi... - gi\|205354066\|ref\|YP_002227867.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica su... gi\|207858407, gi... - gi\|207858407\|ref\|YP_002245058.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica su... gi\|197940006, gi... - gi\|198245490\|ref\|YP_002217125.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica ... gi\|200387088, gi... - gi\|200387088\|ref\|ZP_03213700.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica s... gi\|16766448, gi\|... - gi\|16766448\|ref\|NP_462063.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella typhimurium LT2... gi\|197242848, gi... - gi\|197264593\|ref\|ZP_03164667.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica s... gi\|197095495, gi... - gi\|197364018\|ref\|YP_002143655.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica su... gi\|194737021, gi... - gi\|194737021\|ref\|YP_002116103.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica ... gi\|197250314, gi... - gi\|197250314\|ref\|YP_002148069.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica ... gi\|194449586, gi... - gi\|194449586\|ref\|YP_002047143.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica su... gi\|194459339, gi... - gi\|194472975\|ref\|ZP_03078959.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica s... gi\|168819797, gi... - gi\|205343461\|gb\|EDZ30225.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subs... gi\|194402287, gi... - gi\|194443624\|ref\|YP_002042412.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica ... lcl\|NC_016856.1_... - [gene=hybB] [protein=putative hydrogenase 2 b cytochrome subunit] [protein_id=YP_005239311.1] [locat... gi\|205348564, gi... - gi\|205348564\|gb\|EDZ35195.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|168463651, gi... - gi\|195633216\|gb\|EDX51630.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|168238100, gi... - gi\|197289045\|gb\|EDY28416.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|168242967, gi... - gi\|205337916\|gb\|EDZ24680.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|205331219, gi... - gi\|205331219\|gb\|EDZ17983.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|205333727, gi... - gi\|205333727\|gb\|EDZ20491.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|161365492, gi... - gi\|161616128\|ref\|YP_001590093.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica su... gi\|205323353, gi... - gi\|205323353\|gb\|EDZ11192.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Salmonella enterica subsp... gi\|238909948 - gi\|238909948\|ref\|ZP_04653785.1\| putative hydrogenase 2 b cytochrome subunit [Salmonella enterica sub...	7.0E-83	[1..392]	[1..392]
gi\|26249563, gi\|... - gi\|26249563\|ref\|NP_755603.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli CFT073], ... gi\|75259941, gi\|... - gi\|75259941\|ref\|ZP_00731219.1\| COG5557: Polysulphide reductase [Escherichia coli E22], gi\|193062183\|... gi\|73857017, gi\|... - gi\|74313540\|ref\|YP_311959.1\| putative hydrogenase 2 b cytochrome subunit [Shigella sonnei Ss046], gi... gi\|191167566, gi... - gi\|75229318\|ref\|ZP_00715877.1\| COG5557: Polysulphide reductase [Escherichia coli B7A], gi\|191167566\|... gi\|193067291, gi... - gi\|75239421\|ref\|ZP_00723392.1\| COG5557: Polysulphide reductase [Escherichia coli E110019], gi\|193067... gi\|218555569, gi... - gi\|218555569\|ref\|YP_002388482.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli IAI1]... gi\|218701769, gi... - gi\|218701769\|ref\|YP_002409398.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli IAI39... gi\|218691286, gi... - gi\|218691286\|ref\|YP_002399498.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli ED1a]... gi\|157080701, gi... - gi\|75187818\|ref\|ZP_00701085.1\| COG5557: Polysulphide reductase [Escherichia coli E24377A], gi\|157158... gi\|194426179, gi... - gi\|75212359\|ref\|ZP_00712383.1\| COG5557: Polysulphide reductase [Escherichia coli B171], gi\|194426179... gi\|254038164, gi... - gi\|254038164\|ref\|ZP_04872222.1\| hydrogenase 2 cytochrome b type component [Escherichia sp. 1_1_43], ... gi\|187429952, gi... - gi\|75178894\|ref\|ZP_00698930.1\| COG5557: Polysulphide reductase [Shigella boydii BS512], gi\|187732960...	5.0E-81	[1..392]	[1..392]
gi\|24114303, gi\|... - gi\|24114303\|ref\|NP_708813.1\| putative hydrogenase 2 b cytochrome subunit [Shigella flexneri 2a str. ... gi\|30042607, gi\|... - gi\|30064350\|ref\|NP_838521.1\| putative hydrogenase 2 b cytochrome subunit [Shigella flexneri 2a str. ... gi\|110616446, gi... - gi\|110806898\|ref\|YP_690418.1\| putative hydrogenase 2 b cytochrome subunit [Shigella flexneri 5 str. ...	6.0E-81	[1..392]	[1..392]
gi\|91212409, gi\|... - gi\|91212409\|ref\|YP_542395.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli UTI89], g... gi\|215266393, gi... - gi\|215488321\|ref\|YP_002330752.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli O127:... gi\|218560070, gi... - gi\|218560070\|ref\|YP_002392983.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli S88],... gi\|117625300, gi... - gi\|117625300\|ref\|YP_854501.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli APEC O1]... gi\|191172475, gi... - gi\|75240549\|ref\|ZP_00724477.1\| COG5557: Polysulphide reductase [Escherichia coli F11], gi\|191172475\|... gi\|237706258, gi... - gi\|237706258\|ref\|ZP_04536739.1\| conserved hypothetical protein [Escherichia sp. 3_2_53FAA], gi\|22689... gi\|227887702, gi... - gi\|227887702\|ref\|ZP_04005507.1\| hydrogenase 2 b cytochrome subunit [Escherichia coli 83972], gi\|2278...	6.0E-81	[1..392]	[1..392]
gi\|218433719, gi... - gi\|218706622\|ref\|YP_002414141.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli UMN02... gi\|195937141 - gi\|195937141\|ref\|ZP_03082523.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli O157:H... gi\|170518137, gi... - gi\|170680419\|ref\|YP_001745261.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli SMS... gi\|208813691, gi... - gi\|208813691\|ref\|ZP_03255020.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157... gi\|208726391, gi... - gi\|208806590\|ref\|ZP_03248927.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157... gi\|209399191, gi... - gi\|209399191\|ref\|YP_002272474.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O15... gi\|208739929, gi... - gi\|208819806\|ref\|ZP_03260126.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157... gi\|218353437, gi... - gi\|218696705\|ref\|YP_002404372.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli 55989... gi\|209920471, gi... - gi\|209920471\|ref\|YP_002294555.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli SE11]... gi\|238862458, gi... - gi\|238902113\|ref\|YP_002927909.1\| putative hydrogenase 2 cytochrome b type component [Escherichia col... gi\|124526085, gi... - gi\|124526085\|ref\|ZP_01698090.1\| Polysulphide reductase, NrfD [Escherichia coli B], gi\|124502189\|gb\|E... gi\|242378551, gi... - gi\|251786278\|ref\|YP_003000582.1\| hypothetical protein B21_02820 [Escherichia coli BL21], gi\|24237855... gi\|253323210, gi... - gi\|254289698\|ref\|YP_003055446.1\| predicted hydrogenase 2 cytochrome b type component [Escherichia co... gi\|253974850, gi... - gi\|254162949\|ref\|YP_003046057.1\| predicted hydrogenase 2 cytochrome b type component [Escherichia co... gi\|254594352, gi... - gi\|254794952\|ref\|YP_003079789.1\| predicted hydrogenase 2 cytochrome b type component [Escherichia co... EG11800 - putative hydrogenase 2 cytochrome b type component / Hydrogenase 2 cytochrome b type component, prob... gi\|83587558, gi\|... - gi\|83587558\|ref\|ZP_00926185.1\| COG5557: Polysulphide reductase [Escherichia coli 101-1], gi\|19443673... gi\|75196959, gi\|... - gi\|75196959\|ref\|ZP_00707029.1\| COG5557: Polysulphide reductase [Escherichia coli HS], gi\|157162475\|r... gi\|75515207, gi\|... - gi\|75515207\|ref\|ZP_00737391.1\| COG5557: Polysulphide reductase [Escherichia coli 53638], gi\|18849194... gi\|81242384, gi\|... - gi\|82778236\|ref\|YP_404585.1\| putative hydrogenase 2 b cytochrome subunit [Shigella dysenteriae Sd197... gi\|85675803, gi\|... - gi\|89109770\|ref\|AP_003550.1\| predicted hydrogenase 2 cytochrome b type component [Escherichia coli s... gi\|189363865, gi... - gi\|189363865\|gb\|EDU82284.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... gi\|189358738, gi... - gi\|189358738\|gb\|EDU77157.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... gi\|189000654, gi... - gi\|189000654\|gb\|EDU69640.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... gi\|187770992, gi... - gi\|187770992\|gb\|EDU34836.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... gi\|168797582, gi... - gi\|189379641\|gb\|EDU98057.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... HYBB_ECOLI - Probable Ni/Fe-hydrogenase 2 b-type cytochrome subunit - Escherichia coli gi\|189374103, gi... - gi\|189374103\|gb\|EDU92519.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... gi\|169890378, gi... - gi\|170082543\|ref\|YP_001731863.1\| hydrogenase 2 cytochrome b type component [Escherichia coli str. K-... EG11800 - putative hydrogenase 2 cytochrome b type component / Hydrogenase 2 cytochrome b type component, prob... gi\|170018746, gi... - gi\|170018746\|ref\|YP_001723700.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli ATCC ... gi\|110344827, gi... - gi\|110643235\|ref\|YP_670965.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli 536], gi... gi\|168747500, gi... - gi\|188017900\|gb\|EDU56022.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ...	6.0E-81	[1..392]	[1..392]
gi\|13363352, gi\|... - gi\|15833134\|ref\|NP_311907.1\| putative cytochrome Ni/Fe component of hydrogenase-2 [Escherichia coli ... gi\|13363352, gi\|... - gi\|15833134\|ref\|NP_311907.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli O157:H7 s... gi\|25391407, gi\|... - pir\|\|H85958 hypothetical protein hybB [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|189369448, gi... - gi\|189369448\|gb\|EDU87864.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157:H7 ... gi\|217327822, gi... - gi\|217327822\|ref\|ZP_03443905.1\| Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Escherichia coli O157... gi\|15803540, gi\|... - gi\|15803540\|ref\|NP_289573.1\| putative hydrogenase 2 b cytochrome subunit [Escherichia coli O157:H7 E...	7.0E-81	[1..392]	[1..392]
gi\|81246678, gi\|... - gi\|82545267\|ref\|YP_409214.1\| putative hydrogenase 2 b cytochrome subunit [Shigella boydii Sb227], gi...	1.0E-80	[1..392]	[1..392]
gi\|544484 - gi\|544484\|gb\|AAA21590.1\| hybB	2.0E-80	[1..392]	[1..392]
gi\|33439994 - gi\|33439994\|gb\|AAQ19024.1\| Ni/Fe hydrogenase 2 large subunit [Actinobacillus pleuropneumoniae] gi\|126097589, gi... - gi\|126208797\|ref\|YP_001054022.1\| putative hydrogenase 2 b cytochrome subunit [Actinobacillus pleurop... gi\|165876859, gi... - gi\|165976758\|ref\|YP_001652351.1\| putative hydrogenase 2 b cytochrome subunit [Actinobacillus pleurop... gi\|190150653, gi... - gi\|190150653\|ref\|YP_001969178.1\| putative Ni/Fe-hydrogenase 2 b-type cytochrome subunit [Actinobacil... gi\|53728953 - gi\|53728953\|ref\|ZP_00134403.2\| COG5557: Polysulphide reductase [Actinobacillus pleuropneumoniae sero...	6.0E-72	[5..381]	[4..380]

Back

Predicted Domain #1

Region A:
Residues: [1-237]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSHDPKPLGG KIISKPVIIF GPLIVLCMLL IVKRLVFGLG SVSDLNGGFP WGVWIAFDLL  60
   61 IGTGFACGGW ALAWAVYVFN RGQYHPLVRP ALLASLFGYS LGGLSITIDV GRYWNLPYFY 120
  121 IPGHFNVNSV LFETAVCMTI YIGVMALEFA PALFERLGWK VSLKRLNKVM FFIIALGALL 180
  181 PTMHQSSMGS LMISAGYKVH PLWQSYEMLP LFSVLTAFIM GFSIVIFEGA LVQAGLK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [238-392]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GNGPDEKNLF VKLTNTISVL LAIFVVLRFG ELIYRDKLSY AFAGDFYSAM FWIEVVLMVF  60
   61 PLVVLRVAKL RNDSRMLYLS ALSALLGCAT WRLTYSLVAF NPGGGYHYFP TWEELLISIG 120
  121 FVAIEICAYI VLIRLLPILP PLKQNDHNRH EASKA

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident 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