YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|254779167, gi...
Organism:	Helicobacter pylori B38
Length:	164 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|254779167, gi....

Description	E-value	Query Range	Subject Range
gi\|46156715 - gi\|46156715\|ref\|ZP_00132245.2\| COG0782: Transcription elongation factor [Haemophilus somnus 2336]	209.0	[0..1]	[157..11]
gi\|109456692, gi... - gi\|110680576\|ref\|YP_683583.1\| transcription elongation factor GreA [Roseobacter denitrificans OCh 11...	207.0	[0..1]	[156..157]
GREA_HELHP - Transcription elongation factor GreA OS=Helicobacter hepaticus (strain ATCC 51449 / 3B1) GN=greA PE=... GREA_HELHP - Transcription elongation factor greA OS=Helicobacter hepaticus GN=greA PE=3 SV=1	206.0	[0..1]	[162..1]
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\|...	205.0	[0..1]	[157..1]
gi\|36787795, gi\|... - gi\|37528357\|ref\|NP_931702.1\| transcription elongation factor GreA [Photorhabdus luminescens subsp. l...	203.0	[0..1]	[156..1]
GREA_HELPH - Transcription elongation factor GreA OS=Helicobacter pylori (strain HPAG1) GN=greA PE=3 SV=1 gi\|207092077 - gi\|207092077\|ref\|ZP_03239864.1\| transcription elongation factor GreA [Helicobacter pylori HPKX_438_A... GREA_HELPG - Transcription elongation factor GreA OS=Helicobacter pylori (strain G27) GN=greA PE=3 SV=1 GREA_HELP2 - Transcription elongation factor GreA OS=Helicobacter pylori (strain P12) GN=greA PE=3 SV=1	202.0	[0..1]	[164..1]
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...	201.0	[0..1]	[156..1]
GREA_HELAH - Transcription elongation factor GreA OS=Helicobacter acinonychis (strain Sheeba) GN=greA PE=3 SV=1	201.0	[0..1]	[164..1]
GREA_RHORT - Transcription elongation factor GreA OS=Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 4...	201.0	[0..1]	[156..1]
gi\|82944643, gi\|... - gi\|83309802\|ref\|YP_420066.1\| transcription elongation factor [Magnetospirillum magneticum AMB-1], gi...	200.0	[0..1]	[156..1]

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Predicted Domain #1

Region A:
Residues: [1-164]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKEPMSMHG YNKICAELKQ LKEVERPNIV KEIDIARGHG DLKENAEYHA AKEKQRFIEA  60
   61 RIVDLSEIVA NAQVIDPSAL AHNKVSFGST IKILNLDNDK EFSYTIVGSV ESDPAKGLIS 120
  121 FGSPIAKSLI GKSKGDAVSI QLPNGESDFE ILDIYYKEIC FDEN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.39794
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: