YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|56414248, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Length:	136 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|56414248, gi|....

Description	E-value	Query Range	Subject Range
gi\|224582450, gi... - gi\|224582450\|ref\|YP_002636248.1\| nucleoside diphosphate kinase regulator [Salmonella enterica subsp.... gi\|62179216, gi\|... - gi\|62179216\|ref\|YP_215633.1\| nucleoside diphosphate kinase regulator [Salmonella enterica subsp. ent...	4.0E-39	[1..136]	[1..136]
gi\|46156715 - gi\|46156715\|ref\|ZP_00132245.2\| COG0782: Transcription elongation factor [Haemophilus somnus 2336]	9.0E-39	[3..127]	[36..168]
gi\|192930987, gi... - gi\|75258653\|ref\|ZP_00730060.1\| COG0782: Transcription elongation factor [Escherichia coli E22], gi\|1...	1.0E-37	[1..134]	[1..134]
gi\|23467072, gi\|... - gi\|23467072\|ref\|ZP_00122657.1\| COG0782: Transcription elongation factor [Haemophilus somnus 129PT], ... gi\|170717727, gi... - gi\|170717727\|ref\|YP_001784798.1\| transcription elongation factor GreA [Haemophilus somnus 2336], gi\|...	1.0E-37	[3..127]	[26..158]
gi\|1651248, gi\|8... - gi\|89107477\|ref\|AP_001257.1\| regulator of nucleoside diphosphate kinase [Escherichia coli str. K-12 ... RNK_ECOLI - Regulator of nucleoside diphosphate kinase - Escherichia coli gi\|91209657, gi\|... - gi\|91209657\|ref\|YP_539643.1\| nucleoside diphosphate kinase regulator [Escherichia coli UTI89], gi\|91... gi\|13360107, gi\|... - gi\|15829903\|ref\|NP_308676.1\| nucleoside diphosphate kinase regulator [Escherichia coli O157:H7 str. ... gi\|110640840, gi... - gi\|110640840\|ref\|YP_668568.1\| nucleoside diphosphate kinase regulator [Escherichia coli 536], gi\|110... gi\|110614153, gi... - gi\|110804605\|ref\|YP_688125.1\| nucleoside diphosphate kinase regulator [Shigella flexneri 5 str. 8401... gi\|117622830, gi... - gi\|117622830\|ref\|YP_851743.1\| nucleoside diphosphate kinase regulator [Escherichia coli APEC O1], gi... gi\|124530190, gi... - gi\|124530190\|ref\|ZP_01700939.1\| GreA/GreB family elongation factor [Escherichia coli B], gi\|12449935... RNK_SHIFL - Regulator of nucleoside diphosphate kinase OS=Shigella flexneri GN=rnk PE=3 SV=1 gi\|24111957, gi\|... - gi\|24111957\|ref\|NP_706467.1\| nucleoside diphosphate kinase regulator [Shigella flexneri 2a str. 301]... RNK_ECOL6 - Regulator of nucleoside diphosphate kinase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / ... gi\|30040312, gi\|... - gi\|30062068\|ref\|NP_836239.1\| nucleoside diphosphate kinase regulator [Shigella flexneri 2a str. 2457... RNK_ECO57 - Regulator of nucleoside diphosphate kinase OS=Escherichia coli O157:H7 GN=rnk PE=3 SV=1 EG12637 - regulator of nucleoside diphosphate kinase / Regulator of nucleoside diphosphate kinase; suppresses ... gi\|12513506, gi\|... - gi\|15800325\|ref\|NP_286337.1\| nucleoside diphosphate kinase regulator [Escherichia coli O157:H7 EDL93... gi\|75514704, gi\|... - gi\|75514704\|ref\|ZP_00736959.1\| COG0782: Transcription elongation factor [Escherichia coli 53638], gi... gi\|74311145, gi\|... - gi\|74311145\|ref\|YP_309564.1\| nucleoside diphosphate kinase regulator [Shigella sonnei Ss046], gi\|738... gi\|193069033, gi... - gi\|75236592\|ref\|ZP_00720680.1\| COG0782: Transcription elongation factor [Escherichia coli E110019], ... gi\|190907446, gi... - gi\|75240766\|ref\|ZP_00724673.1\| COG0782: Transcription elongation factor [Escherichia coli F11], gi\|1... gi\|82543058, gi\|... - gi\|82543058\|ref\|YP_407005.1\| nucleoside diphosphate kinase regulator [Shigella boydii Sb227], gi\|812... gi\|194423609, gi... - gi\|83586955\|ref\|ZP_00925585.1\| COG0782: Transcription elongation factor [Escherichia coli 101-1], gi... gi\|254791777, gi... - gi\|254791777\|ref\|YP_003076614.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H... gi\|253972592, gi... - gi\|254160691\|ref\|YP_003043799.1\| nucleoside diphosphate kinase regulator [Escherichia coli B str. RE... gi\|254287479, gi... - gi\|254287479\|ref\|YP_003053227.1\| nucleoside diphosphate kinase regulator [Escherichia coli BL21(DE3)... gi\|75210762, gi\|... - gi\|75210762\|ref\|ZP_00710894.1\| COG0782: Transcription elongation factor [Escherichia coli B171], gi\|... gi\|242376386, gi... - gi\|251784113\|ref\|YP_002998417.1\| hypothetical protein B21_00567 [Escherichia coli BL21], gi\|24237638... gi\|190902608, gi... - gi\|75229505\|ref\|ZP_00716052.1\| COG0782: Transcription elongation factor [Escherichia coli B7A], gi\|1... gi\|238899889, gi... - gi\|238899889\|ref\|YP_002925685.1\| regulator of nucleoside diphosphate kinase [Escherichia coli BW2952... gi\|187428788, gi... - gi\|75177475\|ref\|ZP_00697556.1\| COG0782: Transcription elongation factor [Shigella boydii BS512], gi\|... gi\|237707417, gi... - gi\|237707417\|ref\|ZP_04537898.1\| nucleoside diphosphate kinase regulator [Escherichia sp. 3_2_53FAA],... gi\|157160106, gi... - gi\|75194794\|ref\|ZP_00704864.1\| COG0782: Transcription elongation factor [Escherichia coli HS], gi\|15... gi\|227838496, gi... - gi\|227884410\|ref\|ZP_04002215.1\| nucleoside diphosphate kinase regulator [Escherichia coli 83972], gi... gi\|189360881, gi... - gi\|189360881\|gb\|EDU79300.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|168774674, gi... - gi\|187769767\|gb\|EDU33611.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|168779101, gi... - gi\|189002814\|gb\|EDU71800.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|168786458, gi... - gi\|189373770\|gb\|EDU92186.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|189379372, gi... - gi\|189379372\|gb\|EDU97788.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|170021031, gi... - gi\|170021031\|ref\|YP_001725985.1\| nucleoside diphosphate kinase regulator [Escherichia coli ATCC 8739... gi\|170080292, gi... - gi\|170080292\|ref\|YP_001729612.1\| regulator of nucleoside diphosphate kinase [Escherichia coli str. K... gi\|170519247, gi... - gi\|170681529\|ref\|YP_001742727.1\| regulator of nucleoside diphosphate kinase [Escherichia coli SMS-3-... gi\|188017705, gi... - gi\|188017705\|gb\|EDU55827.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|168754712, gi... - gi\|189357941\|gb\|EDU76360.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|189369200, gi... - gi\|189369200\|gb\|EDU87616.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7 str... gi\|218553153, gi... - gi\|218553153\|ref\|YP_002386066.1\| nucleoside diphosphate kinase regulator [Escherichia coli IAI1], gi... gi\|218557550, gi... - gi\|218557550\|ref\|YP_002390463.1\| nucleoside diphosphate kinase regulator [Escherichia coli S88], gi\|... EG12637 - regulator of nucleoside diphosphate kinase / Regulator of nucleoside diphosphate kinase; suppresses ... gi\|218425998, gi... - gi\|218688434\|ref\|YP_002396646.1\| nucleoside diphosphate kinase regulator [Escherichia coli ED1a], gi... gi\|218694051, gi... - gi\|218694051\|ref\|YP_002401718.1\| nucleoside diphosphate kinase regulator [Escherichia coli 55989], g... gi\|218368969, gi... - gi\|218698983\|ref\|YP_002406612.1\| nucleoside diphosphate kinase regulator [Escherichia coli IAI39], g... gi\|218431041, gi... - gi\|218703944\|ref\|YP_002411463.1\| nucleoside diphosphate kinase regulator [Escherichia coli UMN026], ... gi\|195936160 - gi\|195936160\|ref\|ZP_03081542.1\| nucleoside diphosphate kinase regulator [Escherichia coli O157:H7 st... gi\|208729275, gi... - gi\|208809474\|ref\|ZP_03251811.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7... gi\|208816344, gi... - gi\|208816344\|ref\|ZP_03257523.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7... gi\|208822949, gi... - gi\|208822949\|ref\|ZP_03263267.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7... gi\|209397427, gi... - gi\|209397427\|ref\|YP_002269245.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H... gi\|209917869, gi... - gi\|209917869\|ref\|YP_002291953.1\| nucleoside diphosphate kinase regulator [Escherichia coli SE11], gi... gi\|215263724, gi... - gi\|215485652\|ref\|YP_002328083.1\| nucleoside diphosphate kinase regulator [Escherichia coli O127:H6 s... gi\|217321314, gi... - gi\|217325093\|ref\|ZP_03441177.1\| regulator of nucleoside diphosphate kinase [Escherichia coli O157:H7... RNK_ECOL6 - Regulator of nucleoside diphosphate kinase OS=Escherichia coli O6 GN=rnk PE=3 SV=1	3.0E-37	[1..134]	[1..134]
gi\|83570438, gi\|... - gi\|83570438\|ref\|ZP_00921883.1\| COG0782: Transcription elongation factor [Shigella dysenteriae 1012],...	3.0E-37	[1..134]	[1..134]
gi\|109898530, gi... - gi\|76791109\|ref\|ZP_00773617.1\| Prokaryotic transcription elongation factor GreA [Pseudoalteromonas a...	4.0E-37	[2..126]	[25..157]
gi\|167995305, gi... - gi\|205327000\|gb\|EDZ13764.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|205323254, gi... - gi\|205323254\|gb\|EDZ11093.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|161365670, gi... - gi\|161616306\|ref\|YP_001590271.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|205348488, gi... - gi\|205348488\|gb\|EDZ35119.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|205337869, gi... - gi\|205337869\|gb\|EDZ24633.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|168237998, gi... - gi\|197289064\|gb\|EDY28433.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|205333717, gi... - gi\|205333717\|gb\|EDZ20481.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... lcl\|NC_016856.1_... - [gene=greA] [protein=transcription elongation factor GreA] [protein_id=YP_005239477.1] [location=com... gi\|238910092 - gi\|238910092\|ref\|ZP_04653929.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... gi\|204319945, gi... - gi\|204931178\|ref\|ZP_03221972.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... gi\|199605782, gi... - gi\|200388684\|ref\|ZP_03215296.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... gi\|197939489, gi... - gi\|198244973\|ref\|YP_002217271.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|197095635, gi... - gi\|197364158\|ref\|YP_002143795.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|213646994 - gi\|213646994\|ref\|ZP_03377047.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... gi\|213425423 - gi\|213425423\|ref\|ZP_03358173.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... gi\|206710350, gi... - gi\|207858547\|ref\|YP_002245198.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|205354200, gi... - gi\|205354200\|ref\|YP_002228001.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|194451049, gi... - gi\|194451049\|ref\|YP_002047327.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|194401107, gi... - gi\|194442444\|ref\|YP_002042555.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|168819635, gi... - gi\|205343382\|gb\|EDZ30146.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|168463479, gi... - gi\|195633532\|gb\|EDX51946.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteric... gi\|197262177, gi... - gi\|197262177\|ref\|ZP_03162251.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... gi\|197248717, gi... - gi\|197248717\|ref\|YP_002148223.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|194737942, gi... - gi\|194737942\|ref\|YP_002116247.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|194472290, gi... - gi\|194472290\|ref\|ZP_03078274.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... GREA_SALTY - Transcription elongation factor GreA OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)... GREA_SALTY - Transcription elongation factor greA OS=Salmonella typhimurium GN=greA PE=3 SV=1 gi\|29139185, gi\|... - gi\|29143550\|ref\|NP_806892.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteri... GREA_SALTI - Transcription elongation factor GreA OS=Salmonella typhi GN=greA PE=3 SV=1 gi\|16762061 - gi\|16762061\|ref\|NP_457678.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteri... gi\|224585094, gi... - gi\|224585094\|ref\|YP_002638893.1\| transcription elongation factor GreA [Salmonella enterica subsp. en... gi\|214000936 - gi\|214000936\|ref\|ZP_03411671.1\| transcription elongation factor GreA [Salmonella enterica subsp. ent... GREA_SALTY - Transcription elongation factor greA OS=Salmonella typhimurium GN=greA PE=3 SV=1 GREA_SALTI - Transcription elongation factor greA OS=Salmonella typhi GN=greA PE=3 SV=1 gi\|62181807, gi\|... - gi\|62181807\|ref\|YP_218224.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteri... gi\|56415228, gi\|... - gi\|56415228\|ref\|YP_152303.1\| transcription elongation factor GreA [Salmonella enterica subsp. enteri...	4.0E-37	[3..126]	[26..157]
gi\|56179097, gi\|... - gi\|56460087\|ref\|YP_155368.1\| transcription elongation factor GreA [Idiomarina loihiensis L2TR], gi\|5...	5.0E-37	[3..127]	[26..158]
gi\|109456692, gi... - gi\|110680576\|ref\|YP_683583.1\| transcription elongation factor GreA [Roseobacter denitrificans OCh 11...	7.0E-37	[3..126]	[182..311]

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Predicted Domain #1

Region A:
Residues: [1-136]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRPTIIIND LDAERIDRLL EQPAYADLPI ADALNAELDR AQMCSPQEMP NDVVTMNSRV  60
   61 KFRNLSDGET RVRTLVYPAN MTDSSTQLSV MAPVGAALLG LRVGDTIHWE LPGGASTHLE 120
  121 VLELEYQPEA AGDFLR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	35.69897
Match:	2pn0A
Description:	No description for 2pn0A was found.

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