YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24349795, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	370 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|24349795, gi|....

Description	E-value	Query Range	Subject Range
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...	248.0	[0..2]	[365..26]
gi\|26107378, gi\|... - gi\|26246978\|ref\|NP_753018.1\| outer membrane protein A [Escherichia coli CFT073], gi\|26107378\|gb\|AAN7...	248.0	[0..2]	[365..26]
gi\|117623167, gi... - gi\|117623167\|ref\|YP_852080.1\| outer membrane protein A [Escherichia coli APEC O1], gi\|115512291\|gb\|A...	247.0	[0..2]	[365..21]
gi\|78508569, gi\|... - gi\|78692028\|ref\|ZP_00856606.1\| OmpA family protein [Shewanella sp. MR-7], gi\|78508569\|gb\|EAP22013.1\|...	245.0	[0..1]	[370..1]
OMPA_SHIDY - Outer membrane protein A OS=Shigella dysenteriae GN=ompA PE=3 SV=1	245.0	[0..6]	[365..1]
gi\|113971301, gi... - gi\|82498683\|ref\|ZP_00884153.1\| OmpA family protein [Shewanella sp. MR-4], gi\|82403322\|gb\|EAP44073.1\|...	244.0	[0..1]	[370..1]
gi\|7188818 - gi\|7188818\|gb\|AAF37887.1\|AF234269_1 outer membrane protein A [Escherichia coli] gi\|218364624, gi... - gi\|218557855\|ref\|YP_002390768.1\| outer membrane protein A [Escherichia coli S88], gi\|218364624\|emb\|C...	244.0	[0..6]	[365..1]
gi\|74311514, gi\|... - gi\|74311514\|ref\|YP_309933.1\| outer membrane protein A [Shigella sonnei Ss046], gi\|73854991\|gb\|AAZ876... gi\|254792157, gi... - gi\|254792157\|ref\|YP_003076994.1\| outer membrane protein A (3a;II;G;d) [Escherichia coli O157:H7 str... gi\|75195146, gi\|... - gi\|75195146\|ref\|ZP_00705216.1\| COG2885: Outer membrane protein and related peptidoglycan-associated ... gi\|170080615, gi... - gi\|170080615\|ref\|YP_001729935.1\| outer membrane protein A (3a;II;G;d) [Escherichia coli str. K-12 s... gi\|188493530, gi... - gi\|75513410\|ref\|ZP_00735814.1\| COG2885: Outer membrane protein and related peptidoglycan-associated ... gi\|187730326, gi... - gi\|187730326\|ref\|YP_001880845.1\| outer membrane protein A [Shigella boydii CDC 3083-94], gi\|18742731... gi\|209911468, gi... - gi\|209918209\|ref\|YP_002292293.1\| outer membrane protein A [Escherichia coli SE11], gi\|209911468\|dbj\|... gi\|218351164, gi... - gi\|218694432\|ref\|YP_002402099.1\| outer membrane protein A [Escherichia coli 55989], gi\|218351164\|emb... OMPA_ECOLI - Outer membrane protein A precursor (Outer membrane protein II) - Escherichia coli gi\|32329155 - gi\|32329155\|gb\|AAP74759.1\| outer membrane protein A precursor [Shigella sonnei] OMPA_ECO57 - Outer membrane protein A OS=Escherichia coli O157:H7 GN=ompA PE=3 SV=1 EG10669 - outer membrane protein A (3a;II;G;d) / Outer membrane protein A; Outer membrane porin A; T-even pha... gi\|15800816, gi\|... - gi\|15800816\|ref\|NP_286832.1\| outer membrane protein A [Escherichia coli O157:H7 EDL933], gi\|12514142... gi\|1651465, gi\|8... - gi\|89107807\|ref\|AP_001587.1\| outer membrane protein A (3a;II;G;d) [Escherichia coli str. K-12 subst... EG10669 - outer membrane protein A (3a;II;G;d) / Outer membrane protein A; Outer membrane porin A; T-even pha... gi\|13360501, gi\|... - gi\|15830295\|ref\|NP_309068.1\| outer membrane protein A [Escherichia coli O157:H7 str. Sakai], gi\|1336... gi\|238900215, gi... - gi\|238900215\|ref\|YP_002926011.1\| outer membrane protein A (3a;II;G;d) [Escherichia coli BW2952], gi... gi\|242376772, gi... - gi\|251784499\|ref\|YP_002998803.1\| hypothetical protein B21_00968 [Escherichia coli BL21], gi\|24237677... gi\|253325058, gi... - gi\|254287879\|ref\|YP_003053627.1\| outer membrane protein A (3a;II;G;d) [Escherichia coli BL21(DE3)],... gi\|253972972, gi... - gi\|254161071\|ref\|YP_003044179.1\| outer membrane protein A (3a;II*;G;d) [Escherichia coli B str. REL6...	243.0	[0..6]	[365..1]
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]	243.0	[0..6]	[365..1]

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Predicted Domain #1

Region A:
Residues: [1-220]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDLEKMMKNT LKVVLLTSML PLAASASQEL TPWYVGAGLG VNNYEHIATD NGDDNPYAWD  60
   61 IFAGYMFNDY FGAEIGYRDL GSADWTTGGI SNDAGVKGAT LGLVGVWPLG NRWSLSAEAG 120
  121 AMYYTLENSQ HTGTTSSSYS SNDFAPYVGA GVGYNFTDNL KLQAKYRRYE NLDDTDFNTI 180
  181 EADSNYWGLE LSYRFGTPAA AAPVAAAVVA AAPVDSDNDG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.69897
Match:	1qjpA
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: [221-370]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VYDDKDECPA TPATHKVDSV GCTLYENVKK QEDVGSIQFA NDSAVVKKEY YKDIERLANY  60
   61 MNKNPEFTVE IAGHASNVGK PEYNMVLSDK RADAVAKILV EKYGISQSRV TSNGYGITKP 120
  121 LVAGNSKEAH AANRRIEAIV TTTEKQPVLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.0
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: