Protein Info for DDA3937_RS06170 in Dickeya dadantii 3937

Annotation: peptidoglycan DD-transpeptidase MrdA

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 50 100 150 200 250 300 350 400 450 500 550 600 636 transmembrane" amino acids 21 to 42 (22 residues), see Phobius details TIGR03423: penicillin-binding protein 2" amino acids 20 to 615 (596 residues), 786.4 bits, see alignment E=9.1e-241 PF03717: PBP_dimer" amino acids 65 to 240 (176 residues), 166.6 bits, see alignment E=8.5e-53 PF00905: Transpeptidase" amino acids 273 to 611 (339 residues), 268.4 bits, see alignment E=7.9e-84

Best Hits

Swiss-Prot: 82% identical to MRDA_ECO57: Peptidoglycan D,D-transpeptidase MrdA (mrdA) from Escherichia coli O157:H7

KEGG orthology group: K05515, penicillin-binding protein 2 (inferred from 100% identity to ddd:Dda3937_02483)

MetaCyc: 82% identical to peptidoglycan DD-transpeptidase MrdA (Escherichia coli K-12 substr. MG1655)
Serine-type D-Ala-D-Ala carboxypeptidase. [EC: 3.4.16.4]

Predicted SEED Role

"Penicillin-binding protein 2 (PBP-2)" in subsystem Peptidoglycan Biosynthesis

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

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 E0SEU1 at UniProt or InterPro

Protein Sequence (636 amino acids)

>DDA3937_RS06170 peptidoglycan DD-transpeptidase MrdA (Dickeya dadantii 3937)
MNIERKPFRDYTAEAALFVRRALVAFLGILLLSGILVANLYHLQVSRFDDYRTRSNENRI
KLVPIAPSRGIIYDRNGTPLALNRTIYQLELIPEKVNNLEETLQALKSIIDLTDEDIDNF
RKERKRSRRFTSIPVKTGLNEVQVASFAVNQYRFPGVEVKGYQRRYYPYGAALTHVIGYV
SKINDKDLERLDQEGKLPDYAATHDIGKLGIERYYEDVLHGKPGYEEVEVNNRGRVIRQL
HEQPPQAGKDIYLTLDLNLQLYIEKLLAGSRAAVVVTDPKDASILAMVSTPSYDPNLFVD
GISSKTYHALLNDPNRPLINRATQGVYPPASTVKPYIAVSALSANVITPYTSLFDPGWWQ
LPGSEKRFRDWKKWGHGRLNLTKSLEESADTFFYQVAYDMGIDRLSEWMGKFGYGHRTGI
DLSDKEESPGIMPTREWKMKRYKKPWYQGDTIPVGIGQGYWTATPIQMLKALTTLINDGQ
VKAPHLLSSTQENNTQVPYRQQEHQQIGDIRSGYWEIVKDGMYGVANRQNGTAHKFFADA
PYKIAAKSGTAQVFGLKENETYNANRIAERLRDHKLMTAFAPYNNPKVAMSIILENGGAG
PAVGSIVRQILDHIILGDNNTNLPDAPPSPPGSETE