YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24372191, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	463 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|24372191, gi|....

Description	E-value	Query Range	Subject Range
gi\|82720512, gi\|... - gi\|82742118\|ref\|ZP_00904821.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella sp. W3-18-1], gi\|82720...	369.0	[0..1]	[463..1]
gi\|124511484, gi... - gi\|124544841\|ref\|ZP_01704089.1\| cell wall hydrolase/autolysin [Shewanella putrefaciens 200], gi\|1245... gi\|77808323, gi\|... - gi\|77816725\|ref\|ZP_00815888.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella putrefaciens CN-32], g...	369.0	[0..1]	[463..1]
gi\|113883623, gi... - gi\|82495385\|ref\|ZP_00880961.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella sp. MR-4], gi\|82406569...	367.0	[0..1]	[463..1]
gi\|114048923, gi... - gi\|78688654\|ref\|ZP_00853322.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella sp. MR-7], gi\|78512035...	366.0	[0..1]	[463..1]
gi\|78684347, gi\|... - gi\|78684347\|ref\|ZP_00849132.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella sp. ANA-3], gi\|7850809...	363.0	[0..1]	[463..1]
gi\|113906366, gi... - gi\|160877000\|ref\|YP_001556316.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella baltica OS195], gi\|1... gi\|217499998, gi... - gi\|217974863\|ref\|YP_002359614.1\| N-acetylmuramoyl-L-alanine amidase [Shewanella baltica OS223], gi\|2...	359.0	[0..1]	[463..1]
tr\|I7C5S6\|I7C5S6... - N-acetylmuramoyl-L-alanine amidase OS=Pseudomonas putida (strain DOT-T1E) GN=amiC PE=4 SV=1 gi\|82738816, gi\|... - gi\|82738816\|ref\|ZP_00901640.1\| Peptidoglycan-binding LysM:Cell wall hydrolase/autolysin [Pseudomonas...	350.0	[0..4]	[463..2]
gi\|26991575, gi\|... - gi\|26991575\|ref\|NP_747000.1\| N-acetylmuramoyl-L-alanine amidase [Pseudomonas putida KT2440], gi\|2498...	349.0	[0..4]	[463..2]
gi\|116053096, gi... - gi\|116053096\|ref\|YP_793415.1\| N-acetylmuramoyl-L-alanine amidase [Pseudomonas aeruginosa UCBPP-PA14]...	348.0	[0..3]	[463..6]
gi\|28872059, gi\|... - gi\|28872059\|ref\|NP_794678.1\| N-acetylmuramoyl-L-alanine amidase [Pseudomonas syringae pv. tomato str... tr\|Q87VJ1\|Q87VJ1... - N-acetylmuramoyl-L-alanine amidase, family 3 OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=P...	344.0	[0..4]	[463..2]

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Predicted Domain #1

Region A:
Residues: [1-157]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTKNKHYFQG IILLLCTFFA VAAQAANQLE SVRIWAAPES TRIVFDLSEV PNYSYFTLDG  60
   61 PNRLVVDLKK ASTKLNLKNV DNNSKLVKGI RVSKSPTKGD LRLVIDLVKP LNPNLFSLPV 120
  121 TAPYGNRLVV DLEDKSATAE LSAVSSTPVK KNVTQSV

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [158-344]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QASRDIVIAI DAGHGGDDPG SIGPSGLYEK KVVFEISKRL ASKINDTPGM RAVMIRSGDY  60
   61 FVNLNRRSEL ARNSKADLLI SIHADAFTSP NPRGASVWVL SMRRANSEIG RWLEQKEKHS 120
  121 ELLGGAGEII QNTDNEQYLA MTLLDMSMNS SMAIGHSVAG DILKDLGAVT ELHKSRPESA 180
  181 SFAVLKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.30103
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
metallopeptidase activity	0.117214777864168	bayes_pls_golite062009
binding	0.017794991206844	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [345-463]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PDIPSILVET GFISNPKEER LLSSSRHQES IATAIYKGVN RYFHNNPPAD TLLAKKNTTG  60
   61 STVKSSSKSA GTIKHKVSRG ESLSAIAQRY KVPMASIIRA NGMKTDVVQL GQTLVIPES

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.07
Match:	1xovA
Description:	The crystal structure of the listeria monocytogenes bacteriophage PSA endolysin PlyPSA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity	2.16627623907117	bayes_pls_golite062009
N-acetylmuramoyl-L-alanine amidase activity	1.62284955746999	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	1.17864252294526	bayes_pls_golite062009
catalytic activity	0.567704752440722	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: