YRC Public Data Repository - Protein Structure Prediction

Protein:	SSRP_CAMJR
Organism:	Campylobacter jejuni RM1221
Length:	150 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 SSRP_CAMJR.

Description	E-value	Query Range	Subject Range
gi\|85690505, gi\|... - gi\|85708971\|ref\|ZP_01040037.1\| SsrA-binding protein [Erythrobacter sp. NAP1], gi\|85690505\|gb\|EAQ3050...	240.0	[0..2]	[148..37]
SSRP_METCA - SsrA-binding protein OS=Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath) GN=smpB PE... SSRP_METCA - SsrA-binding protein OS=Methylococcus capsulatus GN=smpB PE=3 SV=1	238.0	[0..4]	[148..13]
gi\|25317491 - pir\|\|AF2439 tmRNA-binding protein [imported] - Nostoc sp. (strain PCC 7120) SSRP_NOSS1 - SsrA-binding protein OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=smpB PE=3 SV=1	237.0	[0..2]	[149..9]
SSRP_ANAVT - SsrA-binding protein OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=smpB PE=3 SV=1	237.0	[0..2]	[149..9]
gi\|77958609, gi\|... - gi\|77958609\|ref\|ZP_00822640.1\| COG0691: tmRNA-binding protein [Yersinia bercovieri ATCC 43970], gi\|2...	237.0	[0..3]	[148..17]
gi\|238793792, gi... - gi\|77978429\|ref\|ZP_00833858.1\| COG0691: tmRNA-binding protein [Yersinia intermedia ATCC 29909], gi\|2...	237.0	[0..3]	[148..17]
gi\|238796717, gi... - gi\|77963356\|ref\|ZP_00827166.1\| COG0691: tmRNA-binding protein [Yersinia mollaretii ATCC 43969], gi\|2...	236.0	[0..3]	[148..17]
SSRP_NOSP7 - SsrA-binding protein OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=smpB PE=3 SV=1	235.0	[0..2]	[149..9]
gi\|204929524, gi... - gi\|204929524\|ref\|ZP_03220598.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ja... gi\|197940299, gi... - gi\|198245783\|ref\|YP_002216696.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar D... gi\|197301208, gi... - gi\|197301208\|ref\|ZP_02664518.2\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Sc... gi\|195633702, gi... - gi\|195873630\|ref\|ZP_02698054.2\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ne... gi\|161615620, gi... - gi\|161615620\|ref\|YP_001589585.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar P... gi\|62128891, gi\|... - gi\|62181258\|ref\|YP_217675.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Chole...	235.0	[0..3]	[148..28]
SSRP_CAUCN - SsrA-binding protein OS=Caulobacter crescentus (strain NA1000 / CB15N) GN=smpB PE=1 SV=1 SSRP_CAUCR - SsrA-binding protein OS=Caulobacter crescentus (strain ATCC 19089 / CB15) GN=smpB PE=3 SV=1 SSRP_CAUCR - SsrA-binding protein OS=Caulobacter crescentus GN=smpB PE=3 SV=1	234.0	[0..2]	[147..3]

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Predicted Domain #1

Region A:
Residues: [1-150]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKIIARNKKA LFDYSIIERF EAGIVLKGSE VVALRAGRAN LKDSFVRIIK NEIFLLNSHI  60
   61 SLLHTTHSFY KHEERGARKL LMHRKQIDKL LGKVSIEGYT IVALDLYFNT KNKVKATLAL 120
  121 AKGKNLHDKR ETLKKKQADL EAKAAMKNYK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	49.522879
Match:	1j1hA
Description:	Small protein B (SmpB)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	3.32492468545684	bayes_pls_golite062009
binding	2.51918663753466	bayes_pls_golite062009
RNA binding	2.15601096339293	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: