Protein Info for Sama_1744 in Shewanella amazonensis SB2B

Annotation: Serine-type D-Ala-D-Ala carboxypeptidase (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 50 100 150 200 250 300 350 400 450 500 554 transmembrane" amino acids 12 to 33 (22 residues), see Phobius details PF02113: Peptidase_S13" amino acids 114 to 531 (418 residues), 317.5 bits, see alignment E=1.4e-98 TIGR00666: D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase" amino acids 129 to 519 (391 residues), 277.9 bits, see alignment E=6e-87

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 saz:Sama_1744)

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 A1S6E3 at UniProt or InterPro

Protein Sequence (554 amino acids)

>Sama_1744 Serine-type D-Ala-D-Ala carboxypeptidase (RefSeq) (Shewanella amazonensis SB2B)
MKGLQATKMTKALVRSLAGLSISFAFGVGATPWLSLDVESTVTASPSASGQPLEATEVPD
NALVEPLLPEPTPIKEERGAEPAFFADTPSSIPPASSLSPLKDIAPAWYLAIKPKQTNVA
VLAVDLKTQQVIISDNSERAMLPASVQKLLLALAAQHTLGPDFRFHTQLFVQGFKPPVLE
RLYIGFSGDPLLTSAELSALLGSLKQQGVRTINQVYLVSAVDKSDKAPGWVWDDLGVCYA
SPVAEFSLDKNCVKASLRPTEKGDGTYVRLAKDAAISIENQLNYRPGASFKECSPHLSVV
GPNRYLLHGCYSGKQALPLSIAVTDTDAWLQEKVAGLLKAAGFNSHTPKRLHTLPANAHL
IADHQSATMDSLLSEMLKESDNLIADALLKQLGKRKGQDESDFYQGSKEMAANLTLLGVD
LSSANLVDGSGLSRYNLLNARQLMQTLLLIHHTEAYASLKDGLPVSGKDGTLLYKRGFNS
LPLKDRVQAKTGSMQGVSNLAGFLRSGDREYAFVVLENGLVEPESQNGKRKPGFAATLLK
ALLQHEPQIMSAQK