Protein Info for GFF3923 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4)

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 50 100 150 200 250 300 350 390 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details PF00768: Peptidase_S11" amino acids 29 to 264 (236 residues), 338.2 bits, see alignment E=3.9e-105 PF13354: Beta-lactamase2" amino acids 42 to 198 (157 residues), 35.4 bits, see alignment E=1.2e-12 PF07943: PBP5_C" amino acids 284 to 374 (91 residues), 81.4 bits, see alignment E=6.6e-27

Best Hits

Swiss-Prot: 100% identical to DACD_SALTY: D-alanyl-D-alanine carboxypeptidase DacD (dacD) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K07258, D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 5/6) [EC: 3.4.16.4] (inferred from 98% identity to ses:SARI_00825)

MetaCyc: 87% identical to D-alanyl-D-alanine carboxypeptidase DacD (Escherichia coli K-12 substr. MG1655)
Beta-lactamase. [EC: 3.5.2.6]; Serine-type D-Ala-D-Ala carboxypeptidase. [EC: 3.5.2.6, 3.4.16.4]; 3.4.16.4 [EC: 3.5.2.6, 3.4.16.4]; 3.4.16.4 [EC: 3.5.2.6, 3.4.16.4]

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

Use Curated BLAST to search for 3.4.16.4 or 3.5.2.6

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

Find the best match in UniProt

Protein Sequence (390 amino acids)

>GFF3923 D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4) (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MLLKRRLFIAASLFAMHLSPALAADAVSFAPQPPAIDAGAWVLMDYTTGQVLTAGNEHQQ
RNPASLTKLMTGYVVDRAIDSHRISPDDIVTVGRDAWAKDNPVFVGSSLMFLKEGDRVSV
RDLSRGLIVDSGNDACVALADYIAGGQPQFVAMMNSYVKKLNLQDTHFETVHGLDAPGQH
SSAYDLAVLSRAIIHGEPEFYHMYSEKSLTWNGITQQNRNGLLWDKTMHIDGLKTGHTSG
AGFNLIASAVDGQRRLIAVVMGAKSSKGREEQARKLLQWGQQNFATVQILHSGKKVGSER
IWYGDKEKIALGTEQDFWMALPKAEIPHIKAKYVLDRKELEAPIAAHQQVGEIELYDRDK
LIAQWPLVTLESVGKGGMFSRLSDYFQHKA