YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373749, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	269 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|24373749, gi|....

Description	E-value	Query Range	Subject Range
gi\|81240395, gi\|... - gi\|82776247\|ref\|YP_402596.1\| outer membrane protein A [Shigella dysenteriae Sd197], gi\|81240395\|gb\|A...	203.0	[0..21]	[267..92]
gi\|26107378, gi\|... - gi\|26246978\|ref\|NP_753018.1\| outer membrane protein A [Escherichia coli CFT073], gi\|26107378\|gb\|AAN7...	203.0	[0..21]	[267..121]
gi\|38000008 - gi\|38000008\|gb\|AAP74760.2\| outer membrane protein A precursor [Shigella flexneri 2a]	202.0	[0..21]	[267..71]
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 ...	201.0	[0..21]	[267..92]
gi\|29137907, gi\|... - gi\|29142277\|ref\|NP_805619.1\| outer membrane protein A [Salmonella enterica subsp. enterica serovar T... gi\|16759951 - gi\|16759951\|ref\|NP_455568.1\| outer membrane protein A [Salmonella enterica subsp. enterica serovar T... OMPA_SALTI - Outer membrane protein A OS=Salmonella typhi GN=ompA PE=3 SV=1 OMPA_SALTI - Outer membrane protein A OS=Salmonella typhi GN=ompA PE=3 SV=1	200.0	[0..21]	[267..92]
OMPA_KLEPN - Outer membrane protein A OS=Klebsiella pneumoniae GN=ompA PE=1 SV=2	200.0	[0..21]	[267..85]
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...	199.0	[0..21]	[267..92]
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]	199.0	[0..21]	[267..92]
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...	198.0	[0..21]	[267..92]
gi\|62127225, gi\|... - gi\|62179592\|ref\|YP_216009.1\| outer membrane protein A [Salmonella enterica subsp. enterica serovar C...	198.0	[0..21]	[267..92]

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Predicted Domain #1

Region A:
Residues: [1-128]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMKKTLISVL VFSVFTASIA TVSARVSLQN QPLLIEPQTE WTIEQEEDDG EALIGLGGGA  60
   61 LLGALVGGPV GAVVGGITGT LIGQSVADTE LVSVTLKNPQ QHIAVQRQQV TSLTVKQLAS 120
  121 EQRAAEYA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	12.30103
Match:	1bxwA
Description:	Outer membrane protein A (OMPA) transmembrane domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
porin activity	3.72603691775929	bayes_pls_golite062009
wide pore channel activity	2.56764837317779	bayes_pls_golite062009
channel activity	0.500502774665998	bayes_pls_golite062009
passive transmembrane transporter activity	0.500502774665998	bayes_pls_golite062009
transporter activity	0.32956132877646	bayes_pls_golite062009
transmembrane transporter activity	0.31625101261287	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [129-269]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 STQKHLDALL AEQQQLLSEL ALGMNVQFRT GSSELEADFL PQLDNVATVM KRSSESNLEL  60
   61 KGYAERRGDW RDNQSLSEHR LLEVRDYLIQ QGVAPARMTT QALGAAMSLN EQLDSESDVS 120
  121 DRRVTLTIPP TQGLMASRVT E

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.0
Match:	2hqsH
Description:	No description for 2hqsH was found.

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: