YRC Public Data Repository - Protein Structure Prediction

Protein:	RHO_PSEAE
Organism:	Pseudomonas aeruginosa
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

[What does the above image mean?]

[Show Ginzu Version Information]

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_PSEAE.

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],...	0.0	[1..418]	[1..418]
gi\|88812431, gi\|... - gi\|88812431\|ref\|ZP_01127680.1\| transcription termination factor Rho [Nitrococcus mobilis Nb-231], gi...	0.0	[1..418]	[1..418]
gi\|46915036, gi\|... - gi\|54310593\|ref\|YP_131613.1\| transcription termination factor Rho [Photobacterium profundum SS9], gi...	0.0	[1..419]	[36..454]
gi\|148283039, gi... - gi\|148361266\|ref\|YP_001252473.1\| transcription termination factor Rho [Legionella pneumophila str. C... gi\|54298935, gi\|... - gi\|54298935\|ref\|YP_125304.1\| transcription termination factor Rho [Legionella pneumophila str. Paris... gi\|54295773, gi\|... - gi\|54295773\|ref\|YP_128188.1\| transcription termination factor Rho [Legionella pneumophila str. Lens]...	0.0	[1..419]	[1..419]
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\|...	0.0	[1..419]	[1..419]
gi\|52843128, gi\|... - gi\|52843128\|ref\|YP_096927.1\| transcription termination factor Rho [Legionella pneumophila subsp. pne...	0.0	[1..419]	[4..422]
gi\|95113222, gi\|... - gi\|95113222\|emb\|CAK17950.1\| transcription termination factor [Pseudomonas entomophila L48], gi\|10478...	0.0	[1..419]	[1..419]
gi\|49088308 - gi\|49088308\|gb\|AAT51555.1\| PA5239 [synthetic construct]	0.0	[1..419]	[1..419]
gi\|37200117, gi\|... - gi\|37681365\|ref\|NP_935974.1\| transcription termination factor Rho [Vibrio vulnificus YJ016], gi\|3720...	0.0	[1..419]	[9..427]
gi\|27364379, gi\|... - gi\|27364379\|ref\|NP_759907.1\| transcription termination factor Rho [Vibrio vulnificus CMCP6], gi\|2736...	0.0	[1..419]	[1..419]

Back

Predicted Domain #1

Region A:
Residues: [1-419]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNLTELKQKP IAELLEMSDA MGLENMARSR KQDIIFALLK KHAKSGEEIS GDGVLEILQD  60
   61 GFGFLRSADS SYLAGPDDIY VSPSQIRRFN LRTGDTIIGK IRPPKEGERY FALLKVDSIN 120
  121 FDRPENAKNK ILFENLTPLF PNERMKMEAG NGSTEDLTGR VIDLCAPIGK GQRGLIVAPP 180
  181 KAGKTIMLQN IASNITRNNP ECHLIVLLID ERPEEVTEMQ RTVRGEVVAS TFDEPPTRHV 240
  241 QVAEMVIEKA KRLVEHKKDV VILLDSITRL ARAYNTVIPS SGKVLTGGVD AHALEKPKRF 300
  301 FGAARNIEEG GSLTILATAL VETGSKMDEV IYEEFKGTGN MELPLDRKIA EKRVFPAINI 360
  361 NRSGTRREEL LTSEDELQRM WILRKILHPM DEISAIEFLI DKLKQTKTND EFFDSMKRK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	144.0
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: