YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|62181807, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67
Length:	158 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|62181807, gi|....

Description	E-value	Query Range	Subject Range
gi\|46156715 - gi\|46156715\|ref\|ZP_00132245.2\| COG0782: Transcription elongation factor [Haemophilus somnus 2336]	3.0E-57	[1..157]	[11..167]
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\|...	6.0E-56	[1..157]	[1..157]
gi\|75430393, gi\|... - gi\|75430393\|ref\|ZP_00732754.1\| transcription elongation factor [Actinobacillus succinogenes 130Z], g...	2.0E-55	[1..158]	[1..158]
GREA_HAEIN - Transcription elongation factor GreA OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20... GREA_HAEIN - Transcription elongation factor greA OS=Haemophilus influenzae GN=greA PE=3 SV=1	2.0E-55	[1..158]	[1..158]
Q66F69\|Q66F69_YERPS - Transcription elongation factor - Yersinia pseudotuberculosis gi\|229695524, gi... - gi\|229839158\|ref\|ZP_04459317.1\| transcription elongation factor [Yersinia pestis biovar Orientalis s... gi\|229896647, gi... - gi\|229896647\|ref\|ZP_04511814.1\| transcription elongation factor [Yersinia pestis Pestoides A], gi\|22... gi\|229687214, gi... - gi\|229899722\|ref\|ZP_04514863.1\| transcription elongation factor [Yersinia pestis biovar Orientalis s... gi\|218930519, gi... - gi\|218930519\|ref\|YP_002348394.1\| transcription elongation factor GreA [Yersinia pestis CO92], gi\|161... gi\|51594823, gi\|... - gi\|51594823\|ref\|YP_069014.1\| transcription elongation factor GreA [Yersinia pseudotuberculosis IP 32... GREA_YERPG - Transcription elongation factor GreA OS=Yersinia pestis bv. Antiqua (strain Angola) GN=greA PE=3 SV=... gi\|153947048, gi... - gi\|77631468\|ref\|ZP_00794054.1\| COG0782: Transcription elongation factor [Yersinia pseudotuberculosis... GREA_YERPE - Transcription elongation factor GreA OS=Yersinia pestis GN=greA PE=3 SV=1 gi\|167057521, gi... - gi\|167423351\|ref\|ZP_02315104.1\| transcription elongation factor GreA [Yersinia pestis biovar Mediaev... gi\|166961268, gi... - gi\|167420462\|ref\|ZP_02312215.1\| transcription elongation factor GreA [Yersinia pestis biovar Orienta... gi\|170025954, gi... - gi\|170025954\|ref\|YP_001722459.1\| transcription elongation factor GreA [Yersinia pseudotuberculosis Y... gi\|167470193 - gi\|167470193\|ref\|ZP_02334897.1\| transcription elongation factor GreA [Yersinia pestis FV-1] gi\|186893832, gi... - gi\|186893832\|ref\|YP_001870944.1\| transcription elongation factor GreA [Yersinia pseudotuberculosis P... gi\|165914674, gi... - gi\|89104075\|ref\|ZP_01176629.1\| COG0782: Transcription elongation factor [Yersinia pestis biovar Orie... gi\|108777966, gi... - gi\|108806053\|ref\|YP_649969.1\| transcription elongation factor GreA [Yersinia pestis Antiqua], gi\|108... gi\|229679654, gi... - gi\|229903884\|ref\|ZP_04518997.1\| transcription elongation factor [Yersinia pestis Nepal516], gi\|22967... gi\|165989711, gi... - gi\|166011327\|ref\|ZP_02232225.1\| transcription elongation factor GreA [Yersinia pestis biovar Antiqua... gi\|165928150, gi... - gi\|165928150\|ref\|ZP_02223982.1\| transcription elongation factor GreA [Yersinia pestis biovar Orienta... gi\|45440432, gi\|... - gi\|45440432\|ref\|NP_991971.1\| transcription elongation factor GreA [Yersinia pestis biovar Microtus s... gi\|167049304, gi... - gi\|167401279\|ref\|ZP_02306779.1\| transcription elongation factor GreA [Yersinia pestis biovar Antiqua... gi\|21957396, gi\|... - gi\|22124593\|ref\|NP_668016.1\| transcription elongation factor GreA [Yersinia pestis KIM], gi\|21957396... gi\|166214002, gi... - gi\|166214002\|ref\|ZP_02240037.1\| transcription elongation factor GreA [Yersinia pestis biovar Antiqua... gi\|145600801, gi... - gi\|145600801\|ref\|YP_001164877.1\| transcription elongation factor GreA [Yersinia pestis Pestoides F],... gi\|153997282, gi... - gi\|153997282\|ref\|ZP_02022382.1\| transcription elongation factor [Yersinia pestis CA88-4125], gi\|1492...	3.0E-55	[1..158]	[1..158]
gi\|229809632, gi... - gi\|229847491\|ref\|ZP_04467588.1\| transcription elongation factor GreA [Haemophilus influenzae 7P49H1]... gi\|144983658 - gi\|144983658\|gb\|EDJ91118.1\| transcription elongation factor GreA [Haemophilus influenzae R3021] gi\|42631768 - gi\|42631768\|ref\|ZP_00157306.1\| COG0782: Transcription elongation factor [Haemophilus influenzae R286... gi\|148718211, gi... - gi\|148826969\|ref\|YP_001291722.1\| transcription elongation factor GreA [Haemophilus influenzae PittGG... gi\|148826011, gi... - gi\|148826011\|ref\|YP_001290764.1\| transcription elongation factor GreA [Haemophilus influenzae PittEE... gi\|145271883, gi... - gi\|145638911\|ref\|ZP_01794519.1\| transcription elongation factor GreA [Haemophilus influenzae PittII]... gi\|42629493 - gi\|42629493\|ref\|ZP_00155039.1\| COG0782: Transcription elongation factor [Haemophilus influenzae R284... gi\|145270704, gi... - gi\|145636182\|ref\|ZP_01791852.1\| transcription elongation factor GreA [Haemophilus influenzae PittHH]... gi\|145634950, gi... - gi\|145634950\|ref\|ZP_01790657.1\| transcription elongation factor GreA [Haemophilus influenzae PittAA]... gi\|145630776 - gi\|145630776\|ref\|ZP_01786554.1\| transcription elongation factor GreA [Haemophilus influenzae 22.4-21... gi\|144978260, gi... - gi\|145629417\|ref\|ZP_01785215.1\| transcription elongation factor GreA [Haemophilus influenzae 22.1-21... gi\|68058200, gi\|... - gi\|68250001\|ref\|YP_249113.1\| transcription elongation factor GreA [Haemophilus influenzae 86-028NP],...	3.0E-55	[1..158]	[1..158]
gi\|75510978, gi\|... - gi\|75510978\|ref\|ZP_00733737.1\| COG0782: Transcription elongation factor [Escherichia coli 53638], gi...	4.0E-55	[1..158]	[1..158]
gi\|109456692, gi... - gi\|110680576\|ref\|YP_683583.1\| transcription elongation factor GreA [Roseobacter denitrificans OCh 11...	5.0E-55	[1..157]	[157..311]
gi\|36787795, gi\|... - gi\|37528357\|ref\|NP_931702.1\| transcription elongation factor GreA [Photorhabdus luminescens subsp. l...	5.0E-55	[1..158]	[1..158]
gi\|218433898, gi... - gi\|218706801\|ref\|YP_002414320.1\| transcription elongation factor GreA [Escherichia coli UMN026], gi\|... gi\|218701950, gi... - gi\|218701950\|ref\|YP_002409579.1\| transcription elongation factor GreA [Escherichia coli IAI39], gi\|2... EG10415 - transcript cleavage factor / Transcript cleavage factor gi\|215488497, gi... - gi\|215488497\|ref\|YP_002330928.1\| transcription elongation factor GreA [Escherichia coli O127:H6 str.... gi\|209913915, gi... - gi\|209920656\|ref\|YP_002294740.1\| transcription elongation factor GreA [Escherichia coli SE11], gi\|20... gi\|218550464, gi... - gi\|218550464\|ref\|YP_002384255.1\| transcription elongation factor GreA [Escherichia fergusonii ATCC 3... gi\|217319247, gi... - gi\|217326880\|ref\|ZP_03442963.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. ... gi\|218560251, gi... - gi\|218560251\|ref\|YP_002393164.1\| transcription elongation factor GreA [Escherichia coli S88], gi\|218... gi\|218362519, gi... - gi\|218555751\|ref\|YP_002388664.1\| transcription elongation factor GreA [Escherichia coli IAI1], gi\|21... gi\|218696886, gi... - gi\|218696886\|ref\|YP_002404553.1\| transcription elongation factor GreA [Escherichia coli 55989], gi\|2... gi\|218691471, gi... - gi\|218691471\|ref\|YP_002399683.1\| transcription elongation factor GreA [Escherichia coli ED1a], gi\|21... gi\|117625475, gi... - gi\|117625475\|ref\|YP_858798.1\| transcription elongation factor GreA [Escherichia coli APEC O1], gi\|11... gi\|124528460, gi... - gi\|124528460\|ref\|ZP_01699749.1\| transcription elongation factor GreA [Escherichia coli B], gi\|124500... GREA_ECOLI - Transcription elongation factor greA (Transcript cleavage factor greA) - Escherichia coli gi\|157162664, gi... - gi\|75197130\|ref\|ZP_00707200.1\| COG0782: Transcription elongation factor [Escherichia coli HS], gi\|15... gi\|75187987, gi\|... - gi\|75187987\|ref\|ZP_00701254.1\| COG0782: Transcription elongation factor [Escherichia coli E24377A], ... gi\|75254891 - gi\|75254891\|ref\|ZP_00726861.1\| COG0782: Transcription elongation factor [Escherichia coli E22] gi\|194430233, gi... - gi\|75208505\|ref\|ZP_00708825.1\| COG0782: Transcription elongation factor [Escherichia coli B171], gi\|... gi\|89109944, gi\|... - gi\|89109944\|ref\|AP_003724.1\| transcription elongation factor [Escherichia coli str. K-12 substr. W31... GREA_ECOL6 - Transcription elongation factor greA OS=Escherichia coli O6 GN=greA PE=3 SV=1 gi\|161367516 - gi\|161367516\|ref\|NP_289755.2\| transcription elongation factor GreA [Escherichia coli O157:H7 EDL933] gi\|227887902, gi... - gi\|227887902\|ref\|ZP_04005707.1\| transcription elongation factor GreA [Escherichia coli 83972], gi\|22... gi\|237706067, gi... - gi\|237706067\|ref\|ZP_04536548.1\| transcription elongation factor greA [Escherichia sp. 3_2_53FAA], gi... gi\|170082716, gi... - gi\|170082716\|ref\|YP_001732036.1\| transcription elongation factor [Escherichia coli str. K-12 substr.... gi\|238863677, gi... - gi\|238902283\|ref\|YP_002928079.1\| transcription elongation factor [Escherichia coli BW2952], gi\|23886... gi\|170018569, gi... - gi\|170018569\|ref\|YP_001723523.1\| transcription elongation factor GreA [Escherichia coli ATCC 8739], ... gi\|251786451, gi... - gi\|251786451\|ref\|YP_003000755.1\| hypothetical protein B21_02997 [Escherichia coli BL21], gi\|24237872... EG10415 - transcript cleavage factor / Transcript cleavage factor gi\|187733737, gi... - gi\|187733737\|ref\|YP_001881904.1\| transcription elongation factor GreA [Shigella boydii CDC 3083-94],... gi\|254289873, gi... - gi\|254289873\|ref\|YP_003055621.1\| transcription elongation factor GreA [Escherichia coli BL21(DE3)], ... gi\|170683303, gi... - gi\|170683303\|ref\|YP_001745453.1\| transcription elongation factor GreA [Escherichia coli SMS-3-5], gi... gi\|226839970, gi... - gi\|254038346\|ref\|ZP_04872404.1\| transcription elongation factor GreA [Escherichia sp. 1_1_43], gi\|22... gi\|208733797, gi... - gi\|208812520\|ref\|ZP_03253849.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. ... gi\|253975024, gi... - gi\|254163123\|ref\|YP_003046231.1\| transcription elongation factor GreA [Escherichia coli B str. REL60... gi\|195938400 - gi\|195938400\|ref\|ZP_03083782.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. ... gi\|254795130, gi... - gi\|254795130\|ref\|YP_003079967.1\| transcription elongation factor [Escherichia coli O157:H7 str. TW14... gi\|209161828, gi... - gi\|209400428\|ref\|YP_002272651.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str.... gi\|208818669, gi... - gi\|208818669\|ref\|ZP_03258989.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. ... gi\|161984851 - gi\|161984851\|ref\|YP_409528.2\| transcription elongation factor GreA [Shigella boydii Sb227] gi\|161950034 - gi\|161950034\|ref\|YP_404844.2\| transcription elongation factor GreA [Shigella dysenteriae Sd197] gi\|168752874, gi... - gi\|188013493\|gb\|EDU51615.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. EC41... GREA_SHIFL - Transcription elongation factor GreA OS=Shigella flexneri GN=greA PE=3 SV=1 gi\|161986440 - gi\|161986440\|ref\|YP_312137.2\| transcription elongation factor GreA [Shigella sonnei Ss046] gi\|24053653, gi\|... - gi\|24114470\|ref\|NP_708980.1\| transcription elongation factor GreA [Shigella flexneri 2a str. 301], g... gi\|189361832, gi... - gi\|189361832\|gb\|EDU80251.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. EC44... GREA_ECOL6 - Transcription elongation factor GreA OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) ... gi\|168754163, gi... - gi\|189358744\|gb\|EDU77163.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. EC44... gi\|30064519, gi\|... - gi\|30064519\|ref\|NP_838690.1\| transcription elongation factor GreA [Shigella flexneri 2a str. 2457T],... gi\|189373995, gi... - gi\|189373995\|gb\|EDU92411.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. EC86... GREA_ECO57 - Transcription elongation factor GreA OS=Escherichia coli O157:H7 GN=greA PE=3 SV=1 gi\|189001112, gi... - gi\|189001112\|gb\|EDU70098.1\| transcription elongation factor GreA [Escherichia coli O157:H7 str. EC40... gi\|110616595, gi... - gi\|110807047\|ref\|YP_690567.1\| transcription elongation factor GreA [Shigella flexneri 5 str. 8401], ... gi\|91212603, gi\|... - gi\|91212603\|ref\|YP_542589.1\| transcription elongation factor GreA [Escherichia coli UTI89], gi\|91074... gi\|38704147 - gi\|38704147\|ref\|NP_312087.2\| transcription elongation factor GreA [Escherichia coli O157:H7 str. Sak... gi\|110345013, gi... - gi\|110643421\|ref\|YP_671151.1\| transcription elongation factor GreA [Escherichia coli 536], gi\|110345...	6.0E-55	[1..158]	[1..158]

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Predicted Domain #1

Region A:
Residues: [1-158]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQAIPMTLRG AEKLREELDF LKSVRRPEII AAIAEAREHG DLKENAEYHA AREQQGFCEG  60
   61 RIKDIEAKLS NAQVIDVTKM PNNGRVIFGA TVTVLNLDTD EEQTYRIVGD DEADFKQNLI 120
  121 SVNSPIARGL IGKEQDDVVV IKTPGGDVEY EVLKVEYL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.221849
Match:	1grjA
Description:	GREA TRANSCRIPT CLEAVAGE FACTOR FROM ESCHERICHIA COLI
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription elongation regulator activity	3.29955078032206	bayes_pls_golite062009
transcription regulator activity	1.60774059975688	bayes_pls_golite062009
binding	0.991817203637246	bayes_pls_golite062009
catalytic activity	0.885282592863018	bayes_pls_golite062009
peptidyl-prolyl cis-trans isomerase activity	0.749323709309751	bayes_pls_golite062009
cis-trans isomerase activity	0.682910915659374	bayes_pls_golite062009
isomerase activity	0.273471323955819	bayes_pls_golite062009
protein binding	0.0371998661994551	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: