YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|229356094, gi...
Organism:	Vibrio cholerae BX 330286
Length:	257 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|229356094, gi....

Description	E-value	Query Range	Subject Range
gi\|147673454, gi... - gi\|75828201\|ref\|ZP_00757636.1\| COG0689: RNase PH [Vibrio cholerae O395], gi\|227116607\|ref\|YP_0028185... gi\|75816554, gi\|... - gi\|75816554\|ref\|ZP_00747021.1\| COG0689: RNase PH [Vibrio cholerae V52], gi\|121728030\|ref\|ZP_01681069...	289.0	[0..1]	[257..1]
gi\|254226345, gi... - gi\|75819961\|ref\|ZP_00750021.1\| COG0689: RNase PH [Vibrio cholerae V51], gi\|254226345\|ref\|ZP_04919935...	289.0	[0..1]	[257..1]
RNPH_VIBF1 - Ribonuclease PH OS=Vibrio fischeri (strain ATCC 700601 / ES114) GN=rph PE=3 SV=1	283.0	[0..20]	[257..1]
gi\|107104436 - gi\|107104436\|ref\|ZP_01368354.1\| hypothetical protein PaerPA_01005513 [Pseudomonas aeruginosa PACS2]	281.0	[0..21]	[257..3]
RNPH_PSEA7 - Ribonuclease PH OS=Pseudomonas aeruginosa (strain PA7) GN=rph PE=3 SV=1	280.0	[0..21]	[257..3]
RNPH_VIBVU - Ribonuclease PH OS=Vibrio vulnificus (strain CMCP6) GN=rph PE=3 SV=1 RNPH_VIBVY - Ribonuclease PH OS=Vibrio vulnificus (strain YJ016) GN=rph PE=3 SV=1 RNPH_VIBVU - Ribonuclease PH OS=Vibrio vulnificus GN=rph PE=3 SV=1	280.0	[0..20]	[257..1]
RNPH_PSEA8 - Ribonuclease PH OS=Pseudomonas aeruginosa (strain LESB58) GN=rph PE=3 SV=1 gi\|254237972, gi... - gi\|84317970\|ref\|ZP_00966404.1\| COG0689: RNase PH [Pseudomonas aeruginosa C3719], gi\|254237972\|ref\|ZP... gi\|254243780, gi... - gi\|84323960\|ref\|ZP_00972025.1\| COG0689: RNase PH [Pseudomonas aeruginosa 2192], gi\|254243780\|ref\|ZP_... RNPH_PSEAB - Ribonuclease PH OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=rph PE=3 SV=1 RNPH_PSEAE - Ribonuclease PH OS=Pseudomonas aeruginosa GN=rph PE=1 SV=2 RNPH_PSEAE - Ribonuclease PH OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=r...	280.0	[0..21]	[257..3]
RNPH_ACTSZ - Ribonuclease PH OS=Actinobacillus succinogenes (strain ATCC 55618 / 130Z) GN=rph PE=3 SV=1	279.0	[0..20]	[257..1]
gi\|49082078 - gi\|49082078\|gb\|AAT50439.1\| PA5334 [synthetic construct]	278.0	[0..21]	[257..3]
gi\|91190261, gi\|... - gi\|91225015\|ref\|ZP_01260274.1\| ribonuclease PH [Vibrio alginolyticus 12G01], gi\|91190261\|gb\|EAS76531...	278.0	[0..20]	[257..1]

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Predicted Domain #1

Region A:
Residues: [1-257]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGYNPAPTEL IQPQEGRDPM RPDNRAADQV RPIKITRHYT AYAEGSVLVE FGNTKVLCNA  60
   61 SIEEGVPRWL KGQGKGWVTA EYGMLPRATH SRTRREATNG KQGGRTMEIQ RLIARSLRAV 120
  121 VDLEAMGEIM ITVDCDVIQA DGGTRTASIT GASVALADAF AHLIAKGQLK KNPMKGHVAA 180
  181 VSVGILGEDV LCDLEYVEDS AADTDMNVVM TEEGKMIEIQ GTAEGEPFSH EQLLELLAVA 240
  241 KKGIADIVAV QKASLLD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	75.522879
Match:	1r6lA
Description:	Crystal Structure Of The tRNA Processing Enzyme Rnase pH From Pseudomonas Aeruginosa
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ribonuclease activity	3.95473097235349	bayes_pls_golite062009
exoribonuclease activity	3.2089851107515	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	3.18053249872858	bayes_pls_golite062009
3'-5'-exoribonuclease activity	2.16830676862423	bayes_pls_golite062009
structural constituent of ribosome	1.90115575554186	bayes_pls_golite062009
structural molecule activity	1.69321127364043	bayes_pls_golite062009
RNA binding	1.36549953164096	bayes_pls_golite062009
transcription regulator activity	1.20748032530392	bayes_pls_golite062009
hydrolase activity	1.18773479836745	bayes_pls_golite062009
nucleic acid binding	1.05662964529454	bayes_pls_golite062009
binding	0.907487229190259	bayes_pls_golite062009
catalytic activity	0.878454819018611	bayes_pls_golite062009
DNA binding	0.828609700556836	bayes_pls_golite062009
nuclease activity	0.69721312877891	bayes_pls_golite062009
3'-5' exonuclease activity	0.477960254167	bayes_pls_golite062009
tRNA-specific ribonuclease activity	0.383567539949931	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.215640934684415	bayes_pls_golite062009
mRNA binding	0.17546516359584	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: