Protein Info for Psyr_4361 in Pseudomonas syringae pv. syringae B728a

Annotation: penicillin-binding protein 6, Serine peptidase, MEROPS family S11

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 50 100 150 200 250 300 350 395 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details PF00768: Peptidase_S11" amino acids 36 to 265 (230 residues), 297.9 bits, see alignment E=7.8e-93 PF13354: Beta-lactamase2" amino acids 50 to 217 (168 residues), 46.5 bits, see alignment E=4.5e-16 PF07943: PBP5_C" amino acids 285 to 375 (91 residues), 98.9 bits, see alignment E=2.3e-32

Best Hits

Swiss-Prot: 46% identical to DACA_ECOL6: D-alanyl-D-alanine carboxypeptidase DacA (dacA) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K07258, D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 5/6) [EC: 3.4.16.4] (inferred from 100% identity to psp:PSPPH_4402)

MetaCyc: 46% identical to D-alanyl-D-alanine carboxypeptidase DacA (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, 3.4.17.8]; 3.4.16.4 [EC: 3.5.2.6, 3.4.16.4, 3.4.17.8]; 3.4.16.4 [EC: 3.5.2.6, 3.4.16.4, 3.4.17.8]; 3.4.16.4 [EC: 3.5.2.6, 3.4.16.4, 3.4.17.8]

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, 3.5.2.6

Use Curated BLAST to search for 3.4.16.4 or 3.4.17.8 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

See Q4ZN81 at UniProt or InterPro

Protein Sequence (395 amino acids)

>Psyr_4361 penicillin-binding protein 6, Serine peptidase, MEROPS family S11 (Pseudomonas syringae pv. syringae B728a)
MPIRILERRMNITTFAKRLCLLVPLIITPTVWAAEQMTPAAPQLAAKSYVLMDATSGNVL
VENNGDQRLAPASLTKLMTAYIATLEIRRGQIGENDPVTISENAWRTGGSRMFIKVGSQV
TVSDLLHGIIIQSGNDASVAISEHIAGSEDAFADMMNKTAGDLGMTNSHFMNPTGLPNPE
HYSSAHDMAILARAIIHEDPAHYAIYSQKEFFWNGIKQPNRNLLLWRDKTVDGLKTGHTD
EAGYCMVSSAVRDGMRLIAVVFGTNSEQARAAETQKLLTYGFRFFETQNFYQKGTELAQA
TVWKGTERQVKAGLAEDLSMTMPKGDMKKLSASMTMNPQLVAPIAKGDVIGKVEVKKDDQ
VVHTANLIALDGVEEGGIFRRVWDSIRLFFYGLFN