Protein Info for Shew_1962 in Shewanella loihica PV-4

Annotation: D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase (RefSeq)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 450 500 543 signal peptide" amino acids 1 to 50 (50 residues), see Phobius details PF02113: Peptidase_S13" amino acids 86 to 504 (419 residues), 382.4 bits, see alignment E=2.8e-118 TIGR00666: D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase" amino acids 99 to 494 (396 residues), 347.8 bits, see alignment E=3.5e-108

Best Hits

KEGG orthology group: K07259, D-alanyl-D-alanine carboxypeptidase / D-alanyl-D-alanine-endopeptidase (penicillin-binding protein 4) [EC: 3.4.16.4 3.4.21.-] (inferred from 100% identity to slo:Shew_1962)

Predicted SEED Role

"D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4)" in subsystem Peptidoglycan Biosynthesis (EC 3.4.16.4)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.4.16.4, 3.4.21.-

Use Curated BLAST to search for 3.4.16.4 or 3.4.21.-

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A3QED0 at UniProt or InterPro

Protein Sequence (543 amino acids)

>Shew_1962 D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase (RefSeq) (Shewanella loihica PV-4)
MYTRLTRGLTALPLNFPSLLTKAIPAAKPFALSLAIAASLIPAASNARADANTNTNSNSN
TKQLDSKGYDNQSYYDNLLSVIAPPHSQLSIFAQDLSNNEILYQHNADTLVLPASTQKLL
TAVAAMRVLGEEFSFATQFSTKGRLSHGVLTGDLYLSFSGDPTLTTDDLRAMLKSLKDAG
IHTVKGNLLLVGQAKEQTRAPGWVWDDLGICYAAPVSSFIVNQNCVKGQLKPKLASSASQ
LNFPRYLPIKVSTTAVFDKTQQEPFCELNLARLPDNHYHISGCYPGDKPLNLAIAVDDPA
LYAKEMLTRMLKSAHIKMSGQVAIAHRTPIGLKPLVTHKSEGLEALLRTMLLDSDNLIAD
SLFKAVGAHYYKVAENFHAGARAVKAILEADGIDLSHSQIIDGSGLSRYNLISARQLAEV
LGLMAKDEKLRPLIELLPVAGVSGTLNYKRGFHQAPLMNKVSAKTGSMQGVDNLAGYLSL
DASHQILFVVMENGQSQKSKKQSPAPFSALFLQSLLDNQGQIVKSQGNEDVDKKNNPKTL
SAQ