Protein Info for SO1115 in Shewanella oneidensis MR-1

Name: pepD
Updated annotation (from data): dipeptidase (EC 3.4.13.-)
Rationale: Specific phenotype: utilization of Gly-DL-Asp
Original annotation: aminoacyl-histidine dipeptidase (NCBI ptt file)

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

• TIGR01893: Xaa-His dipeptidase
  • amino acids 9 to 482 (474 residues), 601.6 bits, E=5.1e-185
• PF01546: Peptidase_M20
  • amino acids 73 to 480 (408 residues), 56.1 bits, E=4.9e-19
• PF07687: M20_dimer
  • amino acids 208 to 291 (84 residues), 49.9 bits, E=2.8e-17

Best Hits

Swiss-Prot: 60% identical to PEPD_ECOLI: Cytosol non-specific dipeptidase (pepD) from Escherichia coli (strain K12)

KEGG orthology group: K01270, aminoacylhistidine dipeptidase [EC: 3.4.13.3] (inferred from 100% identity to son:SO_1115)

MetaCyc: 60% identical to peptidase D (Escherichia coli K-12 substr. MG1655)
Cytosol nonspecific dipeptidase. [EC: 3.4.13.18]; 3.4.13.18 [EC: 3.4.13.18]; 3.4.13.18 [EC: 3.4.13.18]

Predicted SEED Role

"Aminoacyl-histidine dipeptidase (Peptidase D) (EC 3.4.13.3)" (EC 3.4.13.3)

MetaCyc Pathways

• glutathione degradation (DUG pathway) (2/2 steps found)
• γ-glutamyl cycle (4/6 steps found)
• muropeptide degradation (1/4 steps found)

KEGG Metabolic Maps

• Alanine and aspartate metabolism
• Arginine and proline metabolism
• Glutathione metabolism
• Histidine metabolism
• Urea cycle and metabolism of amino groups
• beta-Alanine metabolism

Isozymes

No predicted isozymes

Use Curated BLAST to search for 3.4.13.- or 3.4.13.18 or 3.4.13.3

Sequence Analysis Tools

See Q8EHU8 at UniProt or InterPro

Protein Sequence (486 amino acids)

>SO1115 dipeptidase (EC 3.4.13.-) (Shewanella oneidensis MR-1)
MTALSQLYPQPLWQWFEQICAIPHPSKHEQSLSQHIQAWAKQKQLDVVEDAVGNVIIRKA
ATPGMEDRKVVVIQAHIDMVPQKNADKVHDFIKDPIEAYVDGDWVKAKGTTLGADNGIGM
ASALAILGSDDIKHGPLEVLLTIDEEAGMTGAFGLQAGMLNAEILINTDSEQEGEIYMGC
AGGVDAQITLPMVWQASEQSYASFSLHLSGLKGGHSGVNIHLGRGNANKILARFLFENAD
ELALELTQFTGGSLRNAIPREANISFMLPAENIDALKEKVHAFEALMRAELAIADPDLRL
VLSNIATPKRVMSENSQNTLIDLLHVCPNGVMRMSDEVTGVTETSLNVGVISTNDEEVGI
LCLIRSLIDSGRSQVEGMLNALTNLAGADVEFSGAYPGWKPDNTSPVMAIVRETYESIYH
KEPVIMVIHAGLECGLFKKPYPEMDMVSIGPTIRYPHGPDEMVNITTVGQYWDLLVAVLE
RIPVKA