YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29140280, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Length:	119 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|29140280, gi|....

Description	E-value	Query Range	Subject Range
gi\|26111479, gi\|... - gi\|26251047\|ref\|NP_757087.1\| fumarate reductase subunit D [Escherichia coli CFT073], gi\|26111479\|gb\|...	3.0E-44	[1..119]	[11..129]
FRDD_ECOL5 - Fumarate reductase subunit D OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=frdD PE=3 SV=1 FRDD_SHIF8 - Fumarate reductase subunit D OS=Shigella flexneri serotype 5b (strain 8401) GN=frdD PE=3 SV=1 FRDD_ECOUT - Fumarate reductase subunit D OS=Escherichia coli (strain UTI89 / UPEC) GN=frdD PE=3 SV=1 gi\|13364609, gi\|... - gi\|15834386\|ref\|NP_313159.1\| fumarate reductase subunit D [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|194437313, gi... - gi\|83587274\|ref\|ZP_00925903.1\| COG3080: Fumarate reductase subunit D [Escherichia coli 101-1], gi\|19... gi\|75239120, gi\|... - gi\|75239120\|ref\|ZP_00723100.1\| COG3080: Fumarate reductase subunit D [Escherichia coli F11], gi\|1911... gi\|75514912, gi\|... - gi\|75514912\|ref\|ZP_00737141.1\| COG3080: Fumarate reductase subunit D [Escherichia coli 53638], gi\|18... FRDD_SHIDS - Fumarate reductase subunit D OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=frdD PE=3 SV=1 gi\|89110874, gi\|... - gi\|89110874\|ref\|AP_004654.1\| fumarate reductase (anaerobic), membrane anchor subunit [Escherichia co... gi\|56384130, gi\|... - gi\|56480579\|ref\|NP_710020.2\| fumarate reductase subunit D [Shigella flexneri 2a str. 301], gi\|563841... FRDD_ECOLC - Fumarate reductase subunit D OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=frdD PE=3... FRDD_ECOK1 - Fumarate reductase subunit D OS=Escherichia coli O1:K1 / APEC GN=frdD PE=3 SV=1 gi\|124498724, gi... - gi\|124531205\|ref\|ZP_01701550.1\| fumarate reductase, D subunit [Escherichia coli B], gi\|124498724\|gb\|... EG10333 - fumarate reductase (anaerobic), membrane anchor subunit / Fumarate reductase membrane anchor polypep... gi\|195935945 - gi\|195935945\|ref\|ZP_03081327.1\| fumarate reductase subunit D [Escherichia coli O157:H7 str. EC4024] FRDD_ECOSM - Fumarate reductase subunit D OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=frdD PE=3 SV=1 gi\|208811849, gi... - gi\|208811849\|ref\|ZP_03253178.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4045]... gi\|227886803, gi... - gi\|227886803\|ref\|ZP_04004608.1\| succinate dehydrogenase [Escherichia coli 83972], gi\|227836145\|gb\|EE... gi\|208806326, gi... - gi\|208806326\|ref\|ZP_03248663.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4206]... gi\|237703820, gi... - gi\|237703820\|ref\|ZP_04534301.1\| fumarate reductase subunit D [Escherichia sp. 3_2_53FAA], gi\|2269017... FRDD_ECO5E - Fumarate reductase subunit D OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=frdD PE=3 SV=1 FRDD_ECOBW - Fumarate reductase subunit D OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=frdD PE=3 SV=1 gi\|208739897, gi... - gi\|208819774\|ref\|ZP_03260094.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4042]... gi\|251787406, gi... - gi\|251787406\|ref\|YP_003001710.1\| hypothetical protein B21_03985 [Escherichia coli BL21], gi\|24237967... gi\|217322205, gi... - gi\|217325984\|ref\|ZP_03442068.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. TW14588... gi\|253775219, gi... - gi\|254290835\|ref\|YP_003056583.1\| fumarate reductase subunit D [Escherichia coli BL21(DE3)], gi\|25398... FRDD_ECO27 - Fumarate reductase subunit D OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=frdD PE=3 SV=1 gi\|226840273, gi... - gi\|254037167\|ref\|ZP_04871244.1\| fumarate reductase subunit D [Escherichia sp. 1_1_43], gi\|226840273\|... gi\|189368546, gi... - gi\|189368546\|gb\|EDU86962.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4501], gi... gi\|253975986, gi... - gi\|254164085\|ref\|YP_003047193.1\| fumarate reductase subunit D [Escherichia coli B str. REL606], gi\|2... gi\|189357440, gi... - gi\|189357440\|gb\|EDU75859.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4401], gi... gi\|254796175, gi... - gi\|254796175\|ref\|YP_003081012.1\| fumarate reductase (anaerobic), membrane anchor subunit [Escherichi... gi\|187769922, gi... - gi\|187769922\|gb\|EDU33766.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4196], gi... gi\|189363989, gi... - gi\|189363989\|gb\|EDU82408.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4486], gi... gi\|189375155, gi... - gi\|189375155\|gb\|EDU93571.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC869], gi\|... gi\|189001740, gi... - gi\|189001740\|gb\|EDU70726.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4076], gi... FRDD_ECODH - Fumarate reductase subunit D OS=Escherichia coli (strain K12 / DH10B) GN=frdD PE=3 SV=1 gi\|189375639, gi... - gi\|189375639\|gb\|EDU94055.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC508], gi\|... FRDD_ECO45 - Fumarate reductase subunit D OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=frdD PE=3 SV=1 FRDD_ESCF3 - Fumarate reductase subunit D OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)... FRDD_ECO7I - Fumarate reductase subunit D OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=frdD PE=3 SV=1 FRDD_ECO81 - Fumarate reductase subunit D OS=Escherichia coli O81 (strain ED1a) GN=frdD PE=3 SV=1 sp\|B7UPX3\|FRDD_ECO27 - Fumarate reductase subunit D OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=frdD PE=3 SV=1 FRDD_ECOLU - Fumarate reductase subunit D OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=frdD PE=3 SV... FRDD_SHIFL - Fumarate reductase subunit D OS=Shigella flexneri GN=frdD PE=3 SV=1 gi\|30043792, gi\|... - gi\|30065528\|ref\|NP_839699.1\| fumarate reductase subunit D [Shigella flexneri 2a str. 2457T], gi\|3004... FRDD_ECO57 - Fumarate reductase subunit D OS=Escherichia coli O157:H7 GN=frdD PE=3 SV=1 EG10333 - fumarate reductase (anaerobic), membrane anchor subunit / Fumarate reductase membrane anchor polypep... gi\|15804745, gi\|... - gi\|15804745\|ref\|NP_290786.1\| fumarate reductase subunit D [Escherichia coli O157:H7 EDL933], gi\|1251... gi\|168747985, gi... - gi\|188017393\|gb\|EDU55515.1\| fumarate reductase, D subunit [Escherichia coli O157:H7 str. EC4113], gi... FRDD_ECOLI - Fumarate reductase subunit D (Fumarate reductase 13 kDa hydrophobic protein) - Escherichia coli	1.0E-42	[1..119]	[1..119]
FRDD_SHISS - Fumarate reductase subunit D OS=Shigella sonnei (strain Ss046) GN=frdD PE=3 SV=1 FRDD_SHIBS - Fumarate reductase subunit D OS=Shigella boydii serotype 4 (strain Sb227) GN=frdD PE=3 SV=1 FRDD_ECOSE - Fumarate reductase subunit D OS=Escherichia coli (strain SE11) GN=frdD PE=3 SV=1 FRDD_ECO24 - Fumarate reductase subunit D OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=frdD PE=3 SV=1 FRDD_ECOHS - Fumarate reductase subunit D OS=Escherichia coli O9:H4 (strain HS) GN=frdD PE=3 SV=1 FRDD_ECO8A - Fumarate reductase subunit D OS=Escherichia coli O8 (strain IAI1) GN=frdD PE=3 SV=1 FRDD_ECO55 - Fumarate reductase subunit D OS=Escherichia coli (strain 55989 / EAEC) GN=frdD PE=3 SV=1 gi\|193067926, gi... - gi\|75238679\|ref\|ZP_00722668.1\| COG3080: Fumarate reductase subunit D [Escherichia coli E110019], gi\|... gi\|75256208, gi\|... - gi\|75256208\|ref\|ZP_00727896.1\| COG3080: Fumarate reductase subunit D [Escherichia coli E22], gi\|1930... gi\|194412994, gi... - gi\|75209852\|ref\|ZP_00710050.1\| COG3080: Fumarate reductase subunit D [Escherichia coli B171], gi\|194... gi\|190904343, gi... - gi\|75231252\|ref\|ZP_00717659.1\| COG3080: Fumarate reductase subunit D [Escherichia coli B7A], gi\|1911...	2.0E-42	[1..119]	[1..119]
FRDD_ECOL6 - Fumarate reductase subunit D OS=Escherichia coli O6 GN=frdD PE=3 SV=2 FRDD_ECOL6 - Fumarate reductase subunit D OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=frdD ...	2.0E-42	[1..119]	[1..119]
gi\|38488393 - gi\|38488393\|emb\|CAE55178.1\| fumarate reductase subunit D [Citrobacter murliniae]	7.0E-42	[1..119]	[1..119]
gi\|33358375 - gi\|33358375\|gb\|AAQ16662.1\| FrdD [Escherichia coli]	1.0E-41	[1..119]	[1..119]
FRDD_SHIB3 - Fumarate reductase subunit D OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=frdD PE=...	2.0E-41	[1..119]	[1..119]
FRDD_SALPA - Fumarate reductase subunit D OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=frdD PE=3 SV=1 FRDD_SALPA - Fumarate reductase subunit D OS=Salmonella paratyphi A GN=frdD PE=3 SV=1 FRDD_SALPK - Fumarate reductase subunit D OS=Salmonella paratyphi A (strain AKU_12601) GN=frdD PE=3 SV=1	3.0E-41	[1..119]	[1..119]
FRDD_SALCH - Fumarate reductase subunit D OS=Salmonella choleraesuis GN=frdD PE=3 SV=1 FRDD_SALCH - Fumarate reductase subunit D OS=Salmonella choleraesuis GN=frdD PE=3 SV=1 FRDD_SALCH - Fumarate reductase subunit D OS=Salmonella choleraesuis (strain SC-B67) GN=frdD PE=3 SV=1	5.0E-41	[1..119]	[1..119]
gi\|186893769, gi... - gi\|186893769\|ref\|YP_001870881.1\| fumarate reductase subunit D [Yersinia pseudotuberculosis PB1/+], g... gi\|229690616, gi... - gi\|229842306\|ref\|ZP_04462461.1\| fumarate reductase (anaerobic), membrane anchor subunit [Yersinia pe... gi\|167057738, gi... - gi\|167423568\|ref\|ZP_02315321.1\| fumarate reductase, D subunit [Yersinia pestis biovar Mediaevalis st... gi\|165926726, gi... - gi\|165926726\|ref\|ZP_02222558.1\| fumarate reductase, D subunit [Yersinia pestis biovar Orientalis str... FRDD_YERPE - Fumarate reductase subunit D OS=Yersinia pestis GN=frdD PE=3 SV=1 gi\|45440366, gi\|... - gi\|45440366\|ref\|NP_991905.1\| fumarate reductase subunit D [Yersinia pestis biovar Microtus str. 9100... gi\|89103962, gi\|... - gi\|89103962\|ref\|ZP_01176520.1\| COG3080: Fumarate reductase subunit D [Yersinia pestis biovar Orienta... gi\|166214047, gi... - gi\|166214047\|ref\|ZP_02240082.1\| fumarate reductase, D subunit [Yersinia pestis biovar Antiqua str. B... gi\|150260599, gi... - gi\|150260599\|ref\|ZP_01917327.1\| fumarate reductase hydrophobic protein [Yersinia pestis CA88-4125], ... gi\|22124528, gi\|... - gi\|22124528\|ref\|NP_667951.1\| fumarate reductase subunit D [Yersinia pestis KIM], gi\|21957324\|gb\|AAM8... gi\|165989225, gi... - gi\|166011866\|ref\|ZP_02232764.1\| fumarate reductase, D subunit [Yersinia pestis biovar Antiqua str. E... gi\|108781829, gi... - gi\|108809916\|ref\|YP_653832.1\| fumarate reductase subunit D [Yersinia pestis Antiqua], gi\|108781829\|g... gi\|145212560, gi... - gi\|145600864\|ref\|YP_001164940.1\| fumarate reductase subunit D [Yersinia pestis Pestoides F], gi\|1452... gi\|115346171, gi... - gi\|218927560\|ref\|YP_002345435.1\| fumarate reductase subunit D [Yersinia pestis CO92], gi\|16120692\|re... gi\|108813474, gi... - gi\|229903955\|ref\|ZP_04519068.1\| fumarate reductase (anaerobic), membrane anchor subunit [Yersinia pe... gi\|166963237, gi... - gi\|167419243\|ref\|ZP_02310996.1\| fumarate reductase, D subunit [Yersinia pestis biovar Orientalis str... gi\|51588044, gi\|... - gi\|51594762\|ref\|YP_068953.1\| fumarate reductase subunit D [Yersinia pseudotuberculosis IP 32953], gi... gi\|167400602, gi... - gi\|167400602\|ref\|ZP_02306111.1\| fumarate reductase, D subunit [Yersinia pestis biovar Antiqua str. U... gi\|117675099, gi... - gi\|77631409\|ref\|ZP_00793995.1\| COG3080: Fumarate reductase subunit D [Yersinia pseudotuberculosis IP... Q66FD0\|Q66FD0_YERPS - Fumarate reductase hydrophobic protein - Yersinia pseudotuberculosis gi\|229836616, gi... - gi\|229836616\|ref\|ZP_04456782.1\| fumarate reductase (anaerobic), membrane anchor subunit [Yersinia pe... gi\|77633836, gi\|... - gi\|77633836\|ref\|ZP_00795951.1\| COG3080: Fumarate reductase subunit D [Yersinia pestis Angola], gi\|16... gi\|229840228, gi... - gi\|229840228\|ref\|ZP_04460387.1\| fumarate reductase (anaerobic), membrane anchor subunit [Yersinia pe...	6.0E-41	[2..119]	[1..118]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MINPNPKRSD EPVFWGLFGA GGMWGAIIAP VIVLLVGIML PLGLFPGDAL SFERVLTFAQ  60
   61 SFIGRVFLFL MIVLPLWCGL HRMHHAMHDL KIHVPAGKWV FYGLAAILTV VTAIGVITL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.30103
Match:	1kf6D
Description:	Fumarate reductase subunit FrdD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
succinate dehydrogenase activity	3.77307162030081	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors	2.15706429275351	bayes_pls_golite062009
oxidoreductase activity	2.006262138179	bayes_pls_golite062009
electron carrier activity	1.35460962236208	bayes_pls_golite062009
catalytic activity	1.34226547326392	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: