YRC Public Data Repository - Protein Structure Prediction

Protein:	RHO_ECOLI
Organism:	Escherichia coli
Length:	419 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 RHO_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|207088034 - gi\|207088034\|gb\|EDZ65307.1\| transcription termination factor Rho [Nitrosococcus oceani AFC27] gi\|224408380, gi... - gi\|254436344\|ref\|ZP_05049850.1\| transcription termination factor Rho [Nitrosococcus oceani AFC27], g... gi\|76884364, gi\|... - gi\|77166050\|ref\|YP_344575.1\| transcription termination factor Rho [Nitrosococcus oceani ATCC 19707],...	531.0	[0..1]	[418..1]
gi\|124498664, gi... - gi\|124531287\|ref\|ZP_01701623.1\| transcription termination factor Rho [Escherichia coli B], gi\|124498... gi\|117626043, gi... - gi\|117626043\|ref\|YP_859366.1\| transcription termination factor Rho [Escherichia coli APEC O1], gi\|11... gi\|110644109, gi... - gi\|110644109\|ref\|YP_671839.1\| transcription termination factor Rho [Escherichia coli 536], gi\|110345... tr\|A0A0G3HTJ8\|A0... - Transcription termination factor Rho OS=Escherichia coli (strain K12) GN=rho PE=3 SV=2 gi\|91074878, gi\|... - gi\|91213304\|ref\|YP_543290.1\| transcription termination factor Rho [Escherichia coli UTI89], gi\|91074... gi\|26110951, gi\|... - gi\|26250521\|ref\|NP_756561.1\| transcription termination factor Rho [Escherichia coli CFT073], gi\|2611... gi\|237702792, gi... - gi\|237702792\|ref\|ZP_04533273.1\| transcription termination factor rho [Escherichia sp. 3_2_53FAA], gi... gi\|24115076, gi\|... - ref\|NP_709586.1\| transcription termination factor Rho [Shigella flexneri 2a str. 301], gb\|AAN45293.... gi\|226838685, gi... - gi\|254038994\|ref\|ZP_04873045.1\| transcription termination factor rho [Escherichia sp. 1_1_43], gi\|22... gi\|110617076, gi... - gi\|110807528\|ref\|YP_691048.1\| transcription termination factor Rho [Shigella flexneri 5 str. 8401], ...	526.0	[0..1]	[419..25]
gi\|88812431, gi\|... - gi\|88812431\|ref\|ZP_01127680.1\| transcription termination factor Rho [Nitrococcus mobilis Nb-231], gi...	526.0	[0..1]	[418..1]
gi\|126169995, gi... - gi\|84317892\|ref\|ZP_00966327.1\| COG1158: Transcription termination factor [Pseudomonas aeruginosa C37... gi\|254243879, gi... - gi\|84324057\|ref\|ZP_00972122.1\| COG1158: Transcription termination factor [Pseudomonas aeruginosa 219... gi\|150964060, gi... - gi\|94417714\|ref\|ZP_01297531.1\| hypothetical protein PaerP_01000492 [Pseudomonas aeruginosa PA7], gi\|... gi\|107104341 - gi\|107104341\|ref\|ZP_01368259.1\| hypothetical protein PaerPA_01005416 [Pseudomonas aeruginosa PACS2] gi\|115588607, gi... - gi\|53726700\|ref\|ZP_00141716.2\| COG1158: Transcription termination factor [Pseudomonas aeruginosa UCB... RHO_PSEAE - Transcription termination factor Rho OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS ... RHO_PSEAE - Transcription termination factor rho OS=Pseudomonas aeruginosa GN=rho PE=3 SV=1 gi\|218894341, gi... - gi\|218894341\|ref\|YP_002443211.1\| transcription termination factor Rho [Pseudomonas aeruginosa LESB58...	526.0	[0..1]	[418..1]
gi\|62130025, gi\|... - gi\|62182392\|ref\|YP_218809.1\| transcription termination factor Rho [Salmonella enterica subsp. enteri...	525.0	[0..1]	[419..25]
tr\|I7CAK9\|I7CAK9... - Transcription termination factor Rho OS=Pseudomonas putida (strain DOT-T1E) GN=rho PE=3 SV=1 tr\|E4RCQ4\|E4RCQ4... - Transcription termination factor Rho OS=Pseudomonas putida (strain BIRD-1) GN=rho PE=3 SV=1 gi\|26991890, gi\|... - gi\|26991890\|ref\|NP_747315.1\| transcription termination factor Rho [Pseudomonas putida KT2440], gi\|24... gi\|148550323, gi... - gi\|82736743\|ref\|ZP_00899599.1\| Transcription termination factor Rho [Pseudomonas putida F1], gi\|8271... gi\|170724194, gi... - gi\|170724194\|ref\|YP_001751882.1\| transcription termination factor Rho [Pseudomonas putida W619], gi\|... gi\|166862750, gi... - gi\|167036262\|ref\|YP_001671493.1\| transcription termination factor Rho [Pseudomonas putida GB-1], gi\|...	525.0	[0..1]	[418..1]
gi\|37528480, gi\|... - gi\|37528480\|ref\|NP_931825.1\| transcription termination factor Rho [Photorhabdus luminescens subsp. l...	525.0	[0..1]	[419..1]
gi\|95113222, gi\|... - gi\|95113222\|emb\|CAK17950.1\| transcription termination factor [Pseudomonas entomophila L48], gi\|10478...	525.0	[0..1]	[418..1]
gi\|194444899, gi... - gi\|194444899\|ref\|YP_002043154.1\| transcription termination factor Rho [Salmonella enterica subsp. en... RHO_SALTY - Transcription termination factor Rho OS=Salmonella typhimurium GN=rho PE=3 SV=1 gi\|205340701, gi... - gi\|205340701\|gb\|EDZ27465.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... lcl\|NC_016856.1_... - [gene=rho] [protein=transcription termination factor Rho] [protein_id=YP_005240179.1] [location=4139... gi\|168467667, gi... - gi\|195630005\|gb\|EDX48665.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|168263192, gi... - gi\|205348063\|gb\|EDZ34694.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|197249760, gi... - gi\|197249760\|ref\|YP_002148846.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|194736430, gi... - gi\|194736430\|ref\|YP_002116852.1\| transcription termination factor Rho [Salmonella enterica subsp. en... RHO_SALTY - Transcription termination factor rho OS=Salmonella typhimurium GN=rho PE=3 SV=1 gi\|194469338, gi... - gi\|194469338\|ref\|ZP_03075322.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|194450354, gi... - gi\|194450354\|ref\|YP_002047937.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|205322225, gi... - gi\|205322225\|gb\|EDZ10064.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|161617034, gi... - gi\|161617034\|ref\|YP_001590999.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|160866913, gi... - gi\|161505566\|ref\|YP_001572678.1\| transcription termination factor Rho [Salmonella enterica subsp. ar... gi\|205336257, gi... - gi\|205336257\|gb\|EDZ23021.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|168238373, gi... - gi\|197288790\|gb\|EDY28165.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|168234237, gi... - gi\|205331810\|gb\|EDZ18574.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|167994612, gi... - gi\|205327557\|gb\|EDZ14321.1\| transcription termination factor Rho [Salmonella enterica subsp. enteric... gi\|213856932 - gi\|213856932\|ref\|ZP_03384172.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|213648369 - gi\|213648369\|ref\|ZP_03378422.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|213426567 - gi\|213426567\|ref\|ZP_03359317.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|213051687 - gi\|213051687\|ref\|ZP_03344565.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|238912926 - gi\|238912926\|ref\|ZP_04656763.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|224585739, gi... - gi\|224585739\|ref\|YP_002639538.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|214000864 - gi\|214000864\|ref\|ZP_03411599.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|200388193, gi... - gi\|200388193\|ref\|ZP_03214805.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|198243711, gi... - gi\|198243711\|ref\|YP_002217854.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|197364706, gi... - gi\|197364706\|ref\|YP_002144343.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|197264201, gi... - gi\|197264201\|ref\|ZP_03164275.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|213021585 - gi\|213021585\|ref\|ZP_03336032.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|207859128, gi... - gi\|207859128\|ref\|YP_002245779.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|205274294, gi... - gi\|205354513\|ref\|YP_002228314.1\| transcription termination factor Rho [Salmonella enterica subsp. en... gi\|204930193, gi... - gi\|204930193\|ref\|ZP_03221170.1\| transcription termination factor Rho [Salmonella enterica subsp. ent... gi\|16762213 - gi\|16762213\|ref\|NP_457830.1\| transcription termination factor Rho [Salmonella enterica subsp. enteri... RHO_SALTY - Transcription termination factor Rho OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)... gi\|29143702, gi\|... - gi\|29143702\|ref\|NP_807044.1\| transcription termination factor Rho [Salmonella enterica subsp. enteri... gi\|56415776, gi\|... - gi\|56415776\|ref\|YP_152851.1\| transcription termination factor Rho [Salmonella enterica subsp. enteri... RHO_SALTI - Transcription termination factor rho OS=Salmonella typhi GN=rho PE=3 SV=1 RHO_SALTI - Transcription termination factor Rho OS=Salmonella typhi GN=rho PE=3 SV=1	524.0	[0..1]	[419..1]
gi\|49363\|emb\|CAA... - Rho Factor [Salmonella typhimurium] gi\|1073691, gi\|49363 - gi\|49363\|emb\|CAA79852.1\| Rho Factor [Salmonella typhimurium], pir\|\|B49917 transcription termination ...	524.0	[0..1]	[419..1]

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Predicted Domain #1

Region A:
Residues: [1-419]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNLTELKNTP VSELITLGEN MGLENLARMR KQDIIFAILK QHAKSGEDIF GDGVLEILQD  60
   61 GFGFLRSADS SYLAGPDDIY VSPSQIRRFN LRTGDTISGK IRPPKEGERY FALLKVNEVN 120
  121 FDKPENARNK ILFENLTPLH ANSRLRMERG NGSTEDLTAR VLDLASPIGR GQRGLIVAPP 180
  181 KAGKTMLLQN IAQSIAYNHP DCVLMVLLID ERPEEVTEMQ RLVKGEVVAS TFDEPASRHV 240
  241 QVAEMVIEKA KRLVEHKKDV IILLDSITRL ARAYNTVVPA SGKVLTGGVD ANALHRPKRF 300
  301 FGAARNVEEG GSLTIIATAL IDTGSKMDEV IYEEFKGTGN MELHLSRKIA EKRVFPAIDY 360
  361 NRSGTRKEEL LTTQEELQKM WILRKIIHPM GEIDAMEFLI NKLAMTKTND DFFEMMKRS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	150.0
Match:	1pv4A
Description:	Rho termination factor, N-terminal domain; Rho termination factor, RNA-binding domain; Transcription termination factor Rho, ATPase domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.52864900707835	bayes_pls_golite062009
transcription termination factor activity	1.46620917553746	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
nucleic acid binding	0.991157380393447	bayes_pls_golite062009
transcription regulator activity	0.834867065912847	bayes_pls_golite062009
DNA binding	0.686733725554901	bayes_pls_golite062009
protein binding	0.378225828131122	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	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: