YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16762811
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. CT18
Length:	847 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|16762811.

Description	E-value	Query Range	Subject Range
gi\|77962697, gi\|... - gi\|77962697\|ref\|ZP_00826514.1\| COG1251: NAD(P)H-nitrite reductase [Yersinia mollaretii ATCC 43969], ...	0.0	[1..844]	[1..843]
gi\|56415392, gi\|... - gi\|56415392\|ref\|YP_152467.1\| nitrite reductase large subunit [Salmonella enterica subsp. enterica se... gi\|197095799, gi... - gi\|197364322\|ref\|YP_002143959.1\| nitrite reductase large subunit [Salmonella enterica subsp. enteric...	0.0	[1..847]	[1..847]
gi\|62129611, gi\|... - gi\|62181978\|ref\|YP_218395.1\| nitrite reductase, large subunit [Salmonella enterica subsp. enterica s... gi\|16766762, gi\|... - gi\|16766762\|ref\|NP_462377.1\| nitrite reductase large subunit [Salmonella typhimurium LT2], gi\|164220... gi\|207858715, gi... - gi\|207858715\|ref\|YP_002245366.1\| nitrite reductase large subunit [Salmonella enterica subsp. enteric... gi\|197261710, gi... - gi\|197261710\|ref\|ZP_03161784.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica subs... gi\|197937710, gi... - gi\|198243194\|ref\|YP_002217436.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica sub... gi\|194443307, gi... - gi\|194443307\|ref\|YP_002042725.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica sub... gi\|194457076, gi... - gi\|194470712\|ref\|ZP_03076696.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica subs... gi\|205333170, gi... - gi\|205333170\|gb\|EDZ19934.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica subsp. e... lcl\|NC_016856.1_... - [gene=nirB] [protein=nitrite reductase large subunit] [protein_id=YP_005239669.1] [location=3637374.... gi\|195632361, gi... - gi\|195632361\|gb\|EDX50845.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica subsp. e... gi\|205325566, gi... - gi\|205325566\|gb\|EDZ13405.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica subsp. e... gi\|167994576, gi... - gi\|205327574\|gb\|EDZ14338.1\| nitrite reductase [NAD(P)H], large subunit [Salmonella enterica subsp. e...	0.0	[1..847]	[1..847]
gi\|50122999, gi\|... - gi\|50122999\|ref\|YP_052166.1\| nitrite reductase [NAD(P)H] large subunit [Pectobacterium atrosepticum ...	0.0	[1..840]	[1..840]
gi\|15833470, gi\|... - gi\|15833470\|ref\|NP_312243.1\| nitrite reductase (NAD(P)H) subunit [Escherichia coli O157:H7 str. Saka... gi\|25391520 - pir\|\|H91155 nitrite reductase (NAD(P)H) subunit [imported] - Escherichia coli (strain O157:H7, subst... gi\|15833470, gi\|... - gi\|15833470\|ref\|NP_312243.1\| nitrite reductase (NAD(P)H) subunit [Escherichia coli O157:H7], gi\|1336...	0.0	[1..847]	[1..847]
gi\|91074417, gi\|... - gi\|91212843\|ref\|YP_542829.1\| nitrite reductase [NAD(P)H] large subunit [Escherichia coli UTI89], gi\|... gi\|110345197, gi... - gi\|110643605\|ref\|YP_671335.1\| nitrite reductase [NAD(P)H] large subunit [Escherichia coli 536], gi\|1... gi\|110616747, gi... - gi\|110807199\|ref\|YP_690719.1\| nitrite reductase (NAD(P)H) subunit [Shigella flexneri 5 str. 8401], g... gi\|170018398, gi... - gi\|170018398\|ref\|YP_001723352.1\| nitrite reductase (NAD(P)H), large subunit [Escherichia coli ATCC 8... gi\|189380140, gi... - gi\|189380140\|gb\|EDU98556.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|195934863 - gi\|195934863\|ref\|ZP_03080245.1\| nitrite reductase (NAD(P)H), large subunit [Escherichia coli O157:H7... gi\|170520970, gi... - gi\|170683252\|ref\|YP_001745614.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli SMS-3-... gi\|208814304, gi... - gi\|208814304\|ref\|ZP_03255633.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7... gi\|208808624, gi... - gi\|208808624\|ref\|ZP_03250961.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7... gi\|209162299, gi... - gi\|209400899\|ref\|YP_002272808.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H... gi\|208821398, gi... - gi\|208821398\|ref\|ZP_03261718.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7... gi\|188492187, gi... - gi\|75516166\|ref\|ZP_00738284.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli 53638], gi\|18849... gi\|188014190, gi... - gi\|188014190\|gb\|EDU52312.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|74313872, gi\|... - gi\|74313872\|ref\|YP_312291.1\| nitrite reductase (NAD(P)H) subunit [Shigella sonnei Ss046], gi\|7385734... gi\|190908192, gi... - gi\|75241539\|ref\|ZP_00725384.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli F11], gi\|1911715... gi\|168759396, gi... - gi\|189369461\|gb\|EDU87877.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|192932649, gi... - gi\|75260345\|ref\|ZP_00731613.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli E22], gi\|1930618... gi\|189358961, gi... - gi\|189358961\|gb\|EDU77380.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|168772737, gi... - gi\|187771762\|gb\|EDU35606.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|189364692, gi... - gi\|189364692\|gb\|EDU83111.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|56383870, gi\|... - gi\|56480319\|ref\|NP_709140.2\| nitrite reductase (NAD(P)H) subunit [Shigella flexneri 2a str. 301], gi... gi\|168785176, gi... - gi\|189374375\|gb\|EDU92791.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|189002552, gi... - gi\|189002552\|gb\|EDU71538.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7 str... gi\|75180020, gi\|... - gi\|75180020\|ref\|ZP_00700007.1\| COG1251: NAD(P)H-nitrite reductase [Shigella boydii BS512], gi\|187733... gi\|117625640, gi... - gi\|117625640\|ref\|YP_858963.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli AP... gi\|124528140, gi... - gi\|124528140\|ref\|ZP_01699473.1\| nitrite reductase (NAD(P)H), large subunit [Escherichia coli B], gi\|... gi\|191168417, gi... - gi\|75228406\|ref\|ZP_00715052.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli B7A], gi\|1911684... gi\|75236967, gi\|... - gi\|75236967\|ref\|ZP_00721023.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli E110019], gi\|193... gi\|75188140, gi\|... - gi\|75188140\|ref\|ZP_00701407.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli E24377A], gi\|157... gi\|194427019, gi... - gi\|75211732\|ref\|ZP_00711796.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli B171], gi\|194427... gi\|215266724, gi... - gi\|215488652\|ref\|YP_002331083.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli... gi\|209920818, gi... - gi\|209920818\|ref\|YP_002294902.1\| nitrite reductase large subunit [Escherichia coli SE11], gi\|2099140... gi\|26249965, gi\|... - gi\|26249965\|ref\|NP_756005.1\| nitrite reductase [NAD(P)H] large subunit [Escherichia coli CFT073], gi... gi\|218555911, gi... - gi\|218555911\|ref\|YP_002388824.1\| nitrite reductase, large subunit, NAD(P) H-binding [Escherichia col... gi\|30043611, gi\|... - gi\|30065349\|ref\|NP_839520.1\| nitrite reductase (NAD(P)H) subunit [Shigella flexneri 2a str. 2457T], ... gi\|217321964, gi... - gi\|217325743\|ref\|ZP_03441827.1\| nitrite reductase [NAD(P)H], large subunit [Escherichia coli O157:H7... gi\|218353778, gi... - gi\|218697046\|ref\|YP_002404713.1\| nitrite reductase, large subunit, NAD(P) H-binding [Escherichia col... gi\|218429211, gi... - gi\|218691647\|ref\|YP_002399859.1\| nitrite reductase, large subunit, NAD(P) H-binding [Escherichia col... gi\|237703098, gi... - gi\|237703098\|ref\|ZP_04533579.1\| nitrite reductase large subunit [Escherichia sp. 3_2_53FAA], gi\|2269... gi\|254795289, gi... - gi\|254795289\|ref\|YP_003080126.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli... gi\|209756768, gi... - gi\|209756776\|gb\|ACI76700.1\| nitrite reductase (NAD(P)H) subunit [Escherichia coli], gi\|209756774\|gb\|...	0.0	[1..847]	[1..847]
gi\|77958280, gi\|... - gi\|77958280\|ref\|ZP_00822316.1\| COG1251: NAD(P)H-nitrite reductase [Yersinia bercovieri ATCC 43970], ...	0.0	[1..844]	[1..843]
gi\|238727752, gi... - gi\|77978184\|ref\|ZP_00833616.1\| COG1251: NAD(P)H-nitrite reductase [Yersinia intermedia ATCC 29909], ...	0.0	[1..844]	[1..843]
gi\|81247127, gi\|... - gi\|82545716\|ref\|YP_409663.1\| nitrite reductase (NAD(P)H) subunit [Shigella boydii Sb227], gi\|8124712...	0.0	[1..847]	[1..847]
EG10653 - nitrite reductase, large subunit, NAD(P)H-binding / Nitrite reductase [NAD(P)H] subunit NIRB_ECOLI - Nitrite reductase [NAD(P)H] large subunit (EC 1.7.1.4) - Escherichia coli EG10653 - nitrite reductase, large subunit, NAD(P)H-binding / Nitrite reductase [NAD(P)H] subunit gi\|253975194, gi... - gi\|254163293\|ref\|YP_003046401.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli... gi\|254038529, gi... - gi\|254038529\|ref\|ZP_04872585.1\| nitrite reductase large subunit [Escherichia sp. 1_1_43], gi\|2268390... gi\|169890718, gi... - gi\|170082883\|ref\|YP_001732203.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli... gi\|253979350, gi... - gi\|254290043\|ref\|YP_003055791.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli... gi\|83585124, gi\|... - gi\|83585124\|ref\|ZP_00923776.1\| COG1251: NAD(P)H-nitrite reductase [Escherichia coli 101-1], gi\|19443... gi\|238902457, gi... - gi\|238902457\|ref\|YP_002928253.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli... gi\|89110644, gi\|... - gi\|89110644\|ref\|AP_004424.1\| nitrite reductase, large subunit, NAD(P)H-binding [Escherichia coli str...	0.0	[1..847]	[1..847]

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Predicted Domain #1

Region A:
Residues: [1-413]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKVRLAIIG NGMVGHRFIE DLLDKSDASL FDITVFCEEP RKAYDRVHLS SYFSHHTAEE  60
   61 LSLVREGFYE KHGVKVLVGE RAITINRQEK VIHSSAGRTV YYDKLIMATG SYPWIPPIKG 120
  121 SETQDCFVYR TIEDLNAIEA CARRSKRGAV VGGGLLGLEA AGALKNLGVE THVIEFAPML 180
  181 MAEQLDQMGG EQLRRKIESM GVRVHTSKNT QEIVQQGNEA RKTMRFADGS ELEVDFIVFS 240
  241 TGIRPRDKLA TQCGLAVAQR GGIVINDTCQ TSDPDIYAIG ECASWNNRVY GLVAPGYKMA 300
  301 QVAVDHILGS ENAFEGADLS AKLKLLGVDV GGIGDAHGRT PGARSYVYLD ESKEVYKRLI 360
  361 VSEDNKTLLG AVLVGDTSDY GNLLQLVLNA IELPENPDSL ILPSHASSGK PAI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	79.0
Match:	1ebdA
Description:	Dihydrolipoamide dehydrogenase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on NADH or NADPH	3.16996423124828	bayes_pls_golite062009
oxidoreductase activity	2.84234192551392	bayes_pls_golite062009
catalytic activity	1.56773888754354	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	1.28899593954888	bayes_pls_golite062009
dihydrolipoyl dehydrogenase activity	0.7514316327505	bayes_pls_golite062009
NADH dehydrogenase activity	0.520416738053292	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors	0.510122158032487	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [414-488]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GVDKLPDSAQ ICSCFDVTKG DLIAAINKGC HTVAALKAET KAGTGCGGCI PLVTQVLNAE  60
   61 LAKQGIEVNN NLCEH

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	0.968
Match:	1y56A
Description:	Crystal structure of L-proline dehydrogenase from P.horikoshii
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [489-847]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FAYSRQELFH LIRVEGIKTF EELLTKHGKG YGCEVCKPTV GSLLASCWNE YILKPQHTPL  60
   61 QDTNDNFLAN IQKDGTYSVI PRSAGGEITP EGLVAVGRIA REFNLYTKIT GSQRIGLFGA 120
  121 QKDDLPEIWR QLIEAGFETG HAYAKALRMA KTCVGSTWCR YGVGDSVGFG VELENRYKGI 180
  181 RTPHKMKFGV SGCTRECAEA QGKDVGIIAT EKGWNLYVCG NGGMKPRHAD LLAADLDRDT 240
  241 LIKYLDRFMM FYIRTADKLT RTAPWLDNLE GGIEYLKSVI IDDKLGLNEH LEEEMARLRA 300
  301 AVVCEWTETV NTPAAQVRFK HFINSDKRDP NVQVVPEREQ HRPATPYERI PVTLVEENA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	68.69897
Match:	2akjA
Description:	Structure of spinach nitrite reductase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on other nitrogenous compounds as donors	4.43988753106114	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	3.13268224304716	bayes_pls_golite062009
oxidoreductase activity	2.13548955338201	bayes_pls_golite062009
catalytic activity	1.39967796334655	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor	1.28153249948176	bayes_pls_golite062009
oxidoreductase activity, acting on sulfur group of donors	1.12344361399073	bayes_pls_golite062009
sulfite reductase (NADPH) activity	0.692997440246613	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:

Predicted functions: