YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|124525925, gi...
Organism:	Escherichia coli B
Length:	133 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|124525925, gi....

Description	E-value	Query Range	Subject Range
gi\|91074162, gi\|... - gi\|91212588\|ref\|YP_542574.1\| ribosome-binding factor A [Escherichia coli UTI89], gi\|91074162\|gb\|ABE0... gi\|237706080, gi... - gi\|237706080\|ref\|ZP_04536561.1\| ribosome-binding factor A [Escherichia sp. 3_2_53FAA], gi\|226899120\|... gi\|26249750, gi\|... - gi\|26249750\|ref\|NP_755790.1\| ribosome-binding factor A [Escherichia coli CFT073], gi\|26110178\|gb\|AAN... gi\|24053639, gi\|... - ref\|NP_708968.1\| ribosome-binding factor A [Shigella flexneri 2a str. 301], gb\|AAN44675.1\| ribosome... gi\|226839957, gi... - gi\|254038333\|ref\|ZP_04872391.1\| ribosome-binding factor A [Escherichia sp. 1_1_43], gi\|226839957\|gb\|...	173.0	[0..1]	[133..7]
RBFA_SALPA - Ribosome-binding factor A OS=Salmonella paratyphi A GN=rbfA PE=3 SV=1 gi\|238910080 - gi\|238910080\|ref\|ZP_04653917.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|214000925 - gi\|214000925\|ref\|ZP_03411660.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... RBFA_SALTI - Ribosome-binding factor A OS=Salmonella typhi GN=rbfA PE=3 SV=1 gi\|213980442 - gi\|213980442\|ref\|ZP_03407701.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|213852745 - gi\|213852745\|ref\|ZP_03382277.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|213646147 - gi\|213646147\|ref\|ZP_03376200.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|29143539, gi\|... - gi\|29143539\|ref\|NP_806881.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serovar ... gi\|16762050 - gi\|16762050\|ref\|NP_457667.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serovar ... RBFA_SALPC - Ribosome-binding factor A OS=Salmonella paratyphi C (strain RKS4594) GN=rbfA PE=3 SV=1 RBFA_SALCH - Ribosome-binding factor A OS=Salmonella choleraesuis (strain SC-B67) GN=rbfA PE=3 SV=1 RBFA_SALPA - Ribosome-binding factor A OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=rbfA PE=3 SV=1 RBFA_SALPB - Ribosome-binding factor A OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=rbfA PE=3 SV=1 RBFA_SALTI - Ribosome-binding factor A OS=Salmonella typhi GN=rbfA PE=3 SV=1 RBFA_SALCH - Ribosome-binding factor A OS=Salmonella choleraesuis GN=rbfA PE=3 SV=1 RBFA_SALPB - Ribosome-binding factor A OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=rbfA PE=3 SV=1 RBFA_SALCH - Ribosome-binding factor A OS=Salmonella choleraesuis GN=rbfA PE=3 SV=1 gi\|213052980 - gi\|213052980\|ref\|ZP_03345858.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|213029804 - gi\|213029804\|ref\|ZP_03344251.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|204928299, gi... - gi\|204928299\|ref\|ZP_03219499.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... RBFA_SALPK - Ribosome-binding factor A OS=Salmonella paratyphi A (strain AKU_12601) GN=rbfA PE=3 SV=1 gi\|213620436 - gi\|213620436\|ref\|ZP_03373262.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|213582314 - gi\|213582314\|ref\|ZP_03364140.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|213425435 - gi\|213425435\|ref\|ZP_03358185.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... gi\|213416951 - gi\|213416951\|ref\|ZP_03350095.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... RBFA_SALA4 - Ribosome-binding factor A OS=Salmonella agona (strain SL483) GN=rbfA PE=3 SV=1 gi\|205343329, gi... - gi\|205343329\|gb\|EDZ30093.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serovar W...	171.0	[0..1]	[133..1]
gi\|199604215, gi... - gi\|200387117\|ref\|ZP_03213729.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... RBFA_SALTY - Ribosome-binding factor A OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rbfA PE... RBFA_SALDC - Ribosome-binding factor A OS=Salmonella dublin (strain CT_02021853) GN=rbfA PE=3 SV=1 gi\|194470716, gi... - gi\|194470716\|ref\|ZP_03076700.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serov... lcl\|NC_016856.1_... - [gene=rbfA] [protein=ribosome-binding factor A] [protein_id=YP_005239463.1] [location=complement(346... gi\|205333937, gi... - gi\|205333937\|gb\|EDZ20701.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serovar K... RBFA_SALTY - Ribosome-binding factor A OS=Salmonella typhimurium GN=rbfA PE=3 SV=1 RBFA_SALTY - Ribosome-binding factor A OS=Salmonella typhimurium GN=rbfA PE=3 SV=1 RBFA_SALEP - Ribosome-binding factor A OS=Salmonella enteritidis PT4 (strain P125109) GN=rbfA PE=3 SV=1 RBFA_SALG2 - Ribosome-binding factor A OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=rbfA PE=3 SV=1 gi\|167990150, gi... - gi\|205331145\|gb\|EDZ17909.1\| ribosome-binding factor A [Salmonella enterica subsp. enterica serovar 4...	171.0	[0..1]	[133..1]
RBFA_ERWCT - Ribosome-binding factor A OS=Erwinia carotovora subsp. atroseptica GN=rbfA PE=3 SV=1 RBFA_PECAS - Ribosome-binding factor A OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN=rbfA P... gi\|254987507, gi... - gi\|255056670\|ref\|ZP_05308877.1\| ribosome-binding factor A [Pectobacterium wasabiae WPP163], gi\|25498...	158.0	[0..1]	[133..1]
RBFA_ACTSZ - Ribosome-binding factor A OS=Actinobacillus succinogenes (strain ATCC 55618 / 130Z) GN=rbfA PE=3 SV=...	157.0	[0..1]	[130..1]
RBFA_PSEF5 - Ribosome-binding factor A OS=Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477) GN=rbfA PE=3 SV=1	157.0	[0..1]	[131..1]
RBFA_PASMU - Ribosome-binding factor A OS=Pasteurella multocida (strain Pm70) GN=rbfA PE=3 SV=1 RBFA_PASMU - Ribosome-binding factor A OS=Pasteurella multocida GN=rbfA PE=3 SV=1	157.0	[0..1]	[132..1]
gi\|49077912 - gi\|49077912\|gb\|AAT49730.1\| PA4743 [synthetic construct]	157.0	[0..1]	[130..1]
gi\|213928496, gi... - gi\|213966646\|ref\|ZP_03394797.1\| ribosome-binding factor A [Pseudomonas syringae pv. tomato T1], gi\|2... RBFA_PSESM - Ribosome-binding factor A OS=Pseudomonas syringae pv. tomato GN=rbfA PE=3 SV=1 RBFA_PSESM - Ribosome-binding factor A OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=rbfA PE=3 SV=1	157.0	[0..1]	[131..1]
RBFA_PSEA8 - Ribosome-binding factor A OS=Pseudomonas aeruginosa (strain LESB58) GN=rbfA PE=3 SV=1 gi\|194555340, gi... - gi\|84323600\|ref\|ZP_00971669.1\| COG0858: Ribosome-binding factor A [Pseudomonas aeruginosa 2192], gi\|... gi\|107103842 - gi\|107103842\|ref\|ZP_01367760.1\| hypothetical protein PaerPA_01004913 [Pseudomonas aeruginosa PACS2]	157.0	[0..1]	[131..1]

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Predicted Domain #1

Region A:
Residues: [1-133]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKEFGRPQR VAQEMQKEIA LILQREIKDP RLGMMTTVSG VEMSRDLAYA KVYVTFLNDK  60
   61 DEDAVKAGIK ALQEASGFIR SLLGKAMRLR IVPELTFFYD NSLVEGMRMS NLVTSVVKHD 120
  121 EERRVNPDDS KED

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	37.69897
Match:	1kkgA
Description:	Ribosome-binding factor A, RbfA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	1.78763405231681	bayes_pls_golite062009
nucleic acid binding	0.83586229977035	bayes_pls_golite062009
catalytic activity	0.640244199484628	bayes_pls_golite062009
binding	0.519389427071401	bayes_pls_golite062009
rRNA binding	0.22053492547658	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: