YRC Public Data Repository - Protein Structure Prediction

Protein:	AMIA_ECOLI
Organism:	Escherichia coli
Length:	289 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 AMIA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|82777829, gi\|... - gi\|82777829\|ref\|YP_404178.1\| N-acetylmuramoyl-l-alanine amidase I [Shigella dysenteriae Sd197], gi\|8...	313.0	[0..1]	[289..1]
gi\|110642616, gi... - gi\|110642616\|ref\|YP_670346.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli 536], gi\|110344... gi\|227887480, gi... - gi\|227887480\|ref\|ZP_04005285.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli 83972], gi\|22... gi\|190906800, gi... - gi\|75240093\|ref\|ZP_00724052.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Escherichia coli F11], g... gi\|218428134, gi... - gi\|218690570\|ref\|YP_002398782.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli ED1a], gi\|21... gi\|26109217, gi\|... - gi\|26248811\|ref\|NP_754851.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli CFT073], gi\|2610...	312.0	[0..1]	[289..1]
gi\|15832560, gi\|... - gi\|15832560\|ref\|NP_311333.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli O157:H7], gi\|133... gi\|75211405, gi\|... - gi\|75211405\|ref\|ZP_00711495.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Escherichia coli B171], ... gi\|75237813, gi\|... - gi\|75237813\|ref\|ZP_00721829.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Escherichia coli E110019... gi\|24113776, gi\|... - gi\|24113776\|ref\|NP_708286.1\| N-acetylmuramoyl-l-alanine amidase I [Shigella flexneri 2a str. 301], g... gi\|187730935, gi... - gi\|75178035\|ref\|ZP_00698094.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Shigella boydii BS512], ... gi\|30063827, gi\|... - gi\|30063827\|ref\|NP_837998.1\| N-acetylmuramoyl-l-alanine amidase I [Shigella flexneri 2a str. 2457T],... gi\|75187188, gi\|... - gi\|75187188\|ref\|ZP_00700455.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Escherichia coli E24377A... gi\|81246305, gi\|... - gi\|82544894\|ref\|YP_408841.1\| N-acetylmuramoyl-l-alanine amidase I [Shigella boydii Sb227], gi\|812463... gi\|75257247, gi\|... - gi\|75257247\|ref\|ZP_00728771.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Escherichia coli E22], g... gi\|74312970, gi\|... - gi\|74312970\|ref\|YP_311389.1\| N-acetylmuramoyl-l-alanine amidase I [Shigella sonnei Ss046], gi\|738564... gi\|209764024, gi... - pir\|\|B91042 N-acetylmuramoyl-l-alanine amidase I [imported] - Escherichia coli (strain O157:H7, subs... gi\|194432031, gi... - gi\|83570658\|ref\|ZP_00922101.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Shigella dysenteriae 101... gi\|168798805, gi... - gi\|189378554\|gb\|EDU96970.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|189372388, gi... - gi\|189372388\|gb\|EDU90804.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|208727432, gi... - gi\|208807631\|ref\|ZP_03249968.1\| N-acetylmuramoyl-L-alanine amidase [Escherichia coli O157:H7 str. EC... gi\|195936586 - gi\|195936586\|ref\|ZP_03081968.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli O157:H7 str. ... gi\|208738877, gi... - gi\|208818754\|ref\|ZP_03259074.1\| N-acetylmuramoyl-L-alanine amidase [Escherichia coli O157:H7 str. EC... gi\|208812054, gi... - gi\|208812054\|ref\|ZP_03253383.1\| N-acetylmuramoyl-L-alanine amidase [Escherichia coli O157:H7 str. EC... gi\|15832560, gi\|... - gi\|15832560\|ref\|NP_311333.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli O157:H7 str. Sak... gi\|209913175, gi... - gi\|209919916\|ref\|YP_002294000.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli SE11], gi\|20... gi\|110806376, gi... - gi\|110806376\|ref\|YP_689896.1\| N-acetylmuramoyl-l-alanine amidase I [Shigella flexneri 5 str. 8401], ... gi\|209397820, gi... - gi\|209397820\|ref\|YP_002271912.1\| N-acetylmuramoyl-L-alanine amidase [Escherichia coli O157:H7 str. E... gi\|168756206, gi... - gi\|189356614\|gb\|EDU75033.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|188017032, gi... - gi\|188017032\|gb\|EDU55154.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|168768526, gi... - gi\|189362230\|gb\|EDU80649.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|189368365, gi... - gi\|189368365\|gb\|EDU86781.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|189003567, gi... - gi\|189003567\|gb\|EDU72553.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|187770639, gi... - gi\|187770639\|gb\|EDU34483.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Escherichia coli O157:H7 str. E... gi\|254794388, gi... - gi\|254794388\|ref\|YP_003079225.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli O157:H7 str.... gi\|218554967, gi... - gi\|218554967\|ref\|YP_002387880.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli IAI1], gi\|21... gi\|217327145, gi... - gi\|217327145\|ref\|ZP_03443228.1\| N-acetylmuramoyl-L-alanine amidase [Escherichia coli O157:H7 str. TW... gi\|218696070, gi... - gi\|218696070\|ref\|YP_002403737.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli 55989], gi\|2...	311.0	[0..1]	[289..1]
gi\|91073347, gi\|... - gi\|91211773\|ref\|YP_541759.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli UTI89], gi\|91073... gi\|218559380, gi... - gi\|218559380\|ref\|YP_002392293.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli S88], gi\|218... gi\|117624640, gi... - gi\|117624640\|ref\|YP_853553.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli APEC O1], gi\|11... gi\|226901324, gi... - gi\|237704958\|ref\|ZP_04535439.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia sp. 3_2_53FAA], gi...	311.0	[0..1]	[289..1]
gi\|157067582, gi... - gi\|75196449\|ref\|ZP_00706519.1\| COG0860: N-acetylmuramoyl-L-alanine amidase [Escherichia coli HS], gi...	310.0	[0..1]	[289..1]
gi\|15802966, gi\|... - gi\|15802966\|ref\|NP_288996.1\| N-acetylmuramoyl-l-alanine amidase I [Escherichia coli O157:H7 EDL933],...	309.0	[0..1]	[289..1]
gi\|197093075, gi... - gi\|197361599\|ref\|YP_002141235.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. en... gi\|56126921, gi\|... - gi\|56412664\|ref\|YP_149739.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. enteri...	306.0	[0..1]	[289..1]
gi\|198242319, gi... - gi\|198242319\|ref\|YP_002216520.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. ente... gi\|197264803, gi... - gi\|197264803\|ref\|ZP_03164877.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Salmonella enterica subsp. ... AMIA_SALTY - N-acetylmuramoyl-L-alanine amidase AmiA OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 7007... AMIA_SALTY - Probable N-acetylmuramoyl-L-alanine amidase amiA OS=Salmonella typhimurium GN=amiA PE=3 SV=1 AMIA_SALTY - N-acetylmuramoyl-L-alanine amidase AmiA OS=Salmonella typhimurium GN=amiA PE=3 SV=1 gi\|205349620, gi... - gi\|205349620\|gb\|EDZ36251.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enterica ... gi\|167991748, gi... - gi\|205329916\|gb\|EDZ16680.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enterica ... lcl\|NC_016856.1_... - [gene=amiA] [protein=N-acetylmuramoyl-l-alanine amidase I] [protein_id=YP_005238536.1] [location=261...	306.0	[0..1]	[289..1]
gi\|195630867, gi... - gi\|195630867\|gb\|EDX49459.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Salmonella enterica subsp. ente... gi\|205344769, gi... - gi\|205344769\|gb\|EDZ31533.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enterica ... gi\|194404319, gi... - gi\|194445656\|ref\|YP_002041711.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Salmonella enterica subsp.... gi\|194406178, gi... - gi\|194447874\|ref\|YP_002046515.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. en... gi\|161612805, gi... - gi\|161612805\|ref\|YP_001586770.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. en... gi\|205333539, gi... - gi\|205333539\|gb\|EDZ20303.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enterica ... gi\|197288895, gi... - gi\|197288895\|gb\|EDY28268.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enterica ... gi\|205337715, gi... - gi\|205337715\|gb\|EDZ24479.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enterica ... gi\|224583015, gi... - gi\|224583015\|ref\|YP_002636813.1\| probable N-acetylmuramoyl-L-alanine amidase [Salmonella enterica su... gi\|213421058 - gi\|213421058\|ref\|ZP_03354124.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. ent... gi\|213621970 - gi\|213621970\|ref\|ZP_03374753.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. ent... gi\|213647108 - gi\|213647108\|ref\|ZP_03377161.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. ent... gi\|214003179 - gi\|214003179\|ref\|ZP_03413914.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. ent... gi\|25358150, gi\|... - gi\|25358150\|pir\|\|AG0812 probable N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28) [imported] - Salmo... gi\|204321261, gi... - gi\|204929542\|ref\|ZP_03220616.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enter... gi\|29136560, gi\|... - gi\|29140935\|ref\|NP_804277.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. enteri... gi\|205353556, gi... - gi\|205353556\|ref\|YP_002227357.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. en... gi\|207857863, gi... - gi\|207857863\|ref\|YP_002244514.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. en... gi\|62128652, gi\|... - gi\|62181019\|ref\|YP_217436.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. enteri... gi\|213160985 - gi\|213160985\|ref\|ZP_03346695.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. ent... gi\|194469459, gi... - gi\|194469459\|ref\|ZP_03075443.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Salmonella enterica subsp. ... gi\|194710081, gi... - gi\|194734579\|ref\|YP_002115517.1\| N-acetylmuramoyl-L-alanine amidase AmiA [Salmonella enterica subsp.... gi\|16761368 - gi\|16761368\|ref\|NP_456985.1\| N-acetylmuramoyl-l-alanine amidase I [Salmonella enterica subsp. enteri... gi\|197247477, gi... - gi\|197247477\|ref\|YP_002147404.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. ente... gi\|199604781, gi... - gi\|200387683\|ref\|ZP_03214295.1\| N-acetylmuramoyl-L-alanine amidase [Salmonella enterica subsp. enter...	306.0	[0..1]	[289..1]
gi\|11350626 - pir\|\|G83028 N-acetylmuramoyl-L-alanine amidase PA4947 [imported] - Pseudomonas aeruginosa (strain PA... gi\|218774270, gi... - gi\|218894042\|ref\|YP_002442911.1\| N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa LESB58],... gi\|9951227, gi\|1... - gi\|9951227\|gb\|AAG08332.1\|AE004907_10 N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa PAO1... gi\|254244164, gi... - gi\|254244164\|ref\|ZP_04937486.1\| N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa 2192], gi... gi\|254238338, gi... - gi\|254238338\|ref\|ZP_04931661.1\| N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa C3719], g...	295.0	[0..2]	[284..117]

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Predicted Domain #1

Region A:
Residues: [1-289]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTFKPLKTL TSRRQVLKAG LAALTLSGMS QAIAKDELLK TSNGHSKPKA KKSGGKRVVV  60
   61 LDPGHGGIDT GAIGRNGSKE KHVVLAIAKN VRSILRNHGI DARLTRSGDT FIPLYDRVEI 120
  121 AHKHGADLFM SIHADGFTNP KAAGASVFAL SNRGASSAMA KYLSERENRA DEVAGKKATD 180
  181 KDHLLQQVLF DLVQTDTIKN SLTLGSHILK KIKPVHKLHS RNTEQAAFVV LKSPSVPSVL 240
  241 VETSFITNPE EERLLGTAAF RQKIATAIAE GVISYFHWFD NQKAHSKKR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.221849
Match:	1jwqA
Description:	Structure of the catalytic domain of CwlV, N-acetylmuramoyl-L-alanine amidase from Bacillus(Paenibacillus) polymyxa var.colistinus
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity	3.67722840912402	bayes_pls_golite062009
N-acetylmuramoyl-L-alanine amidase activity	3.0995594592309	bayes_pls_golite062009
peptidase activity	2.70319066310115	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	2.44249748878472	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	2.07011073073947	bayes_pls_golite062009
carboxypeptidase activity	1.95498314957158	bayes_pls_golite062009
catalytic activity	1.3989281287879	bayes_pls_golite062009
exopeptidase activity	0.606503700246216	bayes_pls_golite062009
binding	0.252136075715404	bayes_pls_golite062009
metallopeptidase activity	0.117214777864168	bayes_pls_golite062009
protein binding	0.0314733407355351	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: