YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16759951
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. CT18
Length:	350 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|16759951.

Description	E-value	Query Range	Subject Range
gi\|26107378, gi\|... - gi\|26246978\|ref\|NP_753018.1\| outer membrane protein A [Escherichia coli CFT073], gi\|26107378\|gb\|AAN7...	2.0E-88	[1..350]	[30..379]
gi\|51235576 - gi\|51235576\|gb\|AAT98589.1\| outer membrane protein A [Escherichia coli] gi\|157159269, gi... - gi\|75190025\|ref\|ZP_00703292.1\| COG2885: Outer membrane protein and related peptidoglycan-associated ...	2.0E-87	[1..350]	[1..350]
gi\|81240395, gi\|... - gi\|82776247\|ref\|YP_402596.1\| outer membrane protein A [Shigella dysenteriae Sd197], gi\|81240395\|gb\|A...	3.0E-87	[1..350]	[1..350]
gi\|56413933, gi\|... - gi\|56413933\|ref\|YP_151008.1\| outer membrane protein A [Salmonella enterica subsp. enterica serovar P... gi\|197362856, gi... - gi\|197362856\|ref\|YP_002142493.1\| outer membrane protein A [Salmonella enterica subsp. enterica serov...	4.0E-87	[1..350]	[1..350]
gi\|62127225, gi\|... - gi\|62179592\|ref\|YP_216009.1\| outer membrane protein A [Salmonella enterica subsp. enterica serovar C...	5.0E-87	[1..350]	[1..350]
OMPA_SALTY - Outer membrane protein A OS=Salmonella typhimurium GN=ompA PE=3 SV=2 OMPA_SALTY - Outer membrane protein A OS=Salmonella typhimurium GN=ompA PE=3 SV=2 OMPA_SALTY - Outer membrane protein A OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=ompA PE=... gi\|205352225, gi... - gi\|205352225\|ref\|YP_002226026.1\| outer membrane protein A [Salmonella enterica subsp. enterica serov... gi\|206708218, gi... - gi\|207856415\|ref\|YP_002243066.1\| outer membrane protein A [Salmonella enterica subsp. enterica serov... lcl\|NC_016856.1_... - [gene=ompA] [protein=outer membrane protein A] [protein_id=YP_005236803.1] [location=complement(1119...	5.0E-87	[1..350]	[1..350]
OMPA_SHIDY - Outer membrane protein A OS=Shigella dysenteriae GN=ompA PE=3 SV=1	1.0E-86	[1..350]	[1..351]
gi\|237707059, gi... - gi\|237707059\|ref\|ZP_04537540.1\| outer membrane protein A [Escherichia sp. 3_2_53FAA], gi\|226898269\|g... gi\|91210052, gi\|... - gi\|91210052\|ref\|YP_540038.1\| outer membrane protein A [Escherichia coli UTI89], gi\|91071626\|gb\|ABE06...	2.0E-86	[1..350]	[30..375]
gi\|72587, gi\|758341 - gi\|758341\|emb\|CAA26037.1\| outer membrane protein (ompA) [Salmonella typhimurium], pir\|\|MMEBAT outer ... gi\|758341\|emb\|CA... - outer membrane protein (ompA) [Salmonella typhimurium]	2.0E-86	[1..350]	[1..350]
gi\|117623167, gi... - gi\|117623167\|ref\|YP_852080.1\| outer membrane protein A [Escherichia coli APEC O1], gi\|115512291\|gb\|A...	3.0E-86	[1..350]	[25..370]

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Predicted Domain #1

Region A:
Residues: [1-193]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKKTAIAIAV ALAGFATVAQ AAPKDNTWYA GAKLGWSQYH DTGFIHNDGP THENQLGAGA  60
   61 FGGYQVNPYV GFEMGYDWLG RMPYKGDNTN GAYKAQGVQL TAKLGYPITD DLDVYTRLGG 120
  121 MVWRADTKSN VPGGASTKDH DTGVSPVFAG GIEYAITPEI ATRLEYQWTN NIGDANTIGT 180
  181 RPDNGLLSVG VSY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.221849
Match:	1bxwA
Description:	Outer membrane protein A (OMPA) transmembrane domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
porin activity	5.10991724700971	bayes_pls_golite062009
channel activity	4.78965126968592	bayes_pls_golite062009
passive transmembrane transporter activity	4.78965126968592	bayes_pls_golite062009
wide pore channel activity	3.92328965238944	bayes_pls_golite062009
transporter activity	2.94995161862691	bayes_pls_golite062009
transmembrane transporter activity	2.84443650880263	bayes_pls_golite062009
receptor activity	1.96745124806322	bayes_pls_golite062009
signal transducer activity	1.14131647544827	bayes_pls_golite062009
molecular transducer activity	1.14131647544827	bayes_pls_golite062009
binding	0.881171786743586	bayes_pls_golite062009
protein binding	0.251915221742479	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [194-350]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RFGQQEAAPV VAPAPAPAPE VQTKHFTLKS DVLFNFNKST LKPEGQQALD QLYSQLSNLD  60
   61 PKDGSVVVLG FTDRIGSDAY NQGLSEKRAQ SVVDYLISKG IPSDKISARG MGESNPVTGN 120
  121 TCDNVKPRAA LIDCLAPDRR VEIEVKGVKD VVTQPQA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.221849
Match:	1r1mA
Description:	Structure of the OmpA-like domain of RmpM from Neisseria meningitidis
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.708705497872653	bayes_pls_golite062009
protein binding	0.0802304930997709	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:

Predicted functions: