Protein Info for GFF4368 in Variovorax sp. SCN45

Annotation: Peptidoglycan D,D-transpeptidase MrdA (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 50 100 150 200 250 300 350 400 450 500 550 600 662 transmembrane" amino acids 18 to 39 (22 residues), see Phobius details TIGR03423: penicillin-binding protein 2" amino acids 16 to 613 (598 residues), 736.6 bits, see alignment E=1.1e-225 PF03717: PBP_dimer" amino acids 61 to 237 (177 residues), 160.9 bits, see alignment E=4.6e-51 PF00905: Transpeptidase" amino acids 270 to 608 (339 residues), 211.5 bits, see alignment E=1.6e-66

Best Hits

KEGG orthology group: K05515, penicillin-binding protein 2 (inferred from 74% identity to vap:Vapar_0286)

Predicted SEED Role

"Cell division protein FtsI [Peptidoglycan synthetase] (EC 2.4.1.129)" in subsystem Bacterial Cell Division or Bacterial Cytoskeleton or Flagellum in Campylobacter or Peptidoglycan Biosynthesis (EC 2.4.1.129)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.4.1.129

Use Curated BLAST to search for 2.4.1.129

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

Find the best match in UniProt

Protein Sequence (662 amino acids)

>GFF4368 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) (Variovorax sp. SCN45)
MNEIRNAAAELSRFRRRVVVVGCVVLFGFGLIGARLAFLQVVRHEELADRAESNRTAIVP
IVPNRGQILDRNGVVLASNYAAYTLEITPSKVGDLNAALDELDAIVEITPNDRRRFKRLR
EDSRSFDSIPIRTRLSDEEVARFAAQRYRFPGIEIKARLFRSYPHGEVASHVIGYIGRIN
QREKTAMEDWDEEEQANYRGTDYIGKLGIEQSYEKTLHGQTGVEQMETSAGGRAVRRLAR
HPATPGNTVMLSLDIKLQKLVEDMFGERRGALVAIDPKTGEILAFVSKPTFDPNLFVEGI
DHESWAALIESIDKPLLNRALRGTYPPGSTYKPFMALAALETGARAADKIENDPGSYSFG
GRTFLSHRGGLGGVDMHRAIQFSSNTYFYSLANEMGVDLIHEFMAPLGFGQFTGIDLLGE
SRGVLPSKAWKRAAYRRPDMKTWHAGETISLGIGQGYNSFTMLQLASANATLANGGMHYR
PHLVRAIKDTVTEEIVAQVQPQARDLGYAQKHVDVVRNAMVAVTKGGTGTRVFAGAAYTS
AGKTGTAQAVSLGPKARASGKALEERQRDHALYMAFAPAEAPTIAVAAIVENAGFGAAHA
APIVRRVFDYWIAGQYPNEADMAAVRIGKAAAPIGKPLSTSEMQAFEDQAAAEEGSREAS
AL