YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24345880, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	181 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|24345880, gi|....

Description	E-value	Query Range	Subject Range
gi\|66044072, gi\|... - gi\|66044072\|ref\|YP_233913.1\| N-acetyl-anhydromuranmyl-L-alanine amidase [Pseudomonas syringae pv. sy...	222.0	[0..1]	[178..3]
gi\|71737125, gi\|... - gi\|71737125\|ref\|YP_273124.1\| N-acetyl-anhydromuranmyl-L-alanine amidase [Pseudomonas syringae pv. ph...	217.0	[0..1]	[178..3]
gi\|28868170, gi\|... - gi\|28868170\|ref\|NP_790789.1\| N-acetyl-anhydromuranmyl-L-alanine amidase [Pseudomonas syringae pv. to... tr\|Q888R6\|Q888R6... - N-acetyl-anhydromuramyl-L-alanine amidase AmpD OS=Pseudomonas syringae pv. tomato (strain DC3000) GN...	217.0	[0..1]	[180..3]
gi\|48732416, gi\|... - gi\|77457014\|ref\|YP_346519.1\| N-acetyl-anhydromuranmyl-L-alanine amidase [Pseudomonas fluorescens Pf0...	213.0	[0..1]	[180..3]
gi\|68348644, gi\|... - gi\|70734345\|ref\|YP_257985.1\| N-acetyl-anhydromuranmyl-L-alanine amidase [Pseudomonas fluorescens Pf-...	211.0	[0..1]	[179..3]
gi\|13660767 - gi\|13660767\|gb\|AAK32970.1\| anhydro-N-acetylmuramyl-tripeptide amidase [Enterobacter cloacae]	207.0	[0..1]	[180..1]
gi\|78504200, gi\|... - gi\|78688053\|ref\|ZP_00852778.1\| N-acetylmuramoyl-L-alanine amidase, family 2 [Shewanella sp. ANA-3], ...	207.0	[0..1]	[181..1]
gi\|119766013, gi... - gi\|68546243\|ref\|ZP_00585791.1\| N-acetylmuramoyl-L-alanine amidase, family 2 [Shewanella amazonensis ...	206.0	[0..5]	[180..11]

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Predicted Domain #1

Region A:
Residues: [1-181]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSFEFGWFTA ARRCESPHFN QRPFGEISLL VIHNISLPAG CFGLPYIDQL FQGCLDTNAD  60
   61 NSFADLAGLK VSAHFLIRRD GECVQYVSCD DRAWHAGVSR YGERENCNDF SIGIELEGTD 120
  121 TEPYTAAQYQ QLVELTQALL AQYSSLSAER IVGHCDIAPV RKTDPGPSFD WERYLTKLRD 180
  181 F

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.0
Match:	1j3gA
Description:	AmpD protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
N-acetylmuramoyl-L-alanine amidase activity	5.57894011339111	bayes_pls_golite062009
peptidoglycan binding	3.64373264470797	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	3.57069794427757	bayes_pls_golite062009
catalytic activity	0.998996028203371	bayes_pls_golite062009
hydrolase activity	0.83639977289922	bayes_pls_golite062009
pattern binding	0.274968943680442	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	0.0631264776586918	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: