Protein Info for PS417_20920 in Pseudomonas simiae WCS417

Annotation: D-alanyl-D-alanine carboxypeptidase

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 50 100 150 200 250 300 350 400 450 486 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details PF02113: Peptidase_S13" amino acids 65 to 456 (392 residues), 284 bits, see alignment E=2.1e-88 TIGR00666: D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase" amino acids 65 to 456 (392 residues), 220 bits, see alignment E=2.3e-69

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 97% identity to pfs:PFLU4599)

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)

Compare to protein 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 A0A1N7U501 at UniProt or InterPro

Protein Sequence (486 amino acids)

>PS417_20920 D-alanyl-D-alanine carboxypeptidase (Pseudomonas simiae WCS417)
MIKSLRSIFFAGLILPVAFSVSAAPVNTTLPPSVQQALTKAKMQNTALSLVMIPLNGPGT
PTVFNADVSVNPASTMKLVTTYAALEMLGPNHQWKTEFYTDGTLSGGVLHGNLYLKGGGD
PKLNMEKLWLLMRDLRANGVQQVTGDLVLDRSFFNQPLLPEFNDDGNDENKPFLVKPDAL
LVNLKALRFVTRNDSGRVLVSVEPPIASIRIDNQVKVSNAKQCTGDVRYNPVTAADGSVT
VTVSGQLADGCSSQTYLSLLDHATYTAGAVRAIWKELGGTIQGRDIQAPVPKDAKVLARA
FSPDLAEIIRDINKYSNNTMAQQLFLSLGAQFRNDADGDDAKAAQRVVRQWLAKKGITAP
HLVMENGSGLSRAERVSAREMATMLQAAWKSPYAAEYISSMPITGTDGTMRKRLKTTAMR
GEAHVKTGTLNTVRAIAGFSRDNNGNTWAVVAILNDPKPWGASSVLDQVLLDLYRQPKAV
AAAPVL