Protein Info for EFB2_02013 in Escherichia fergusonii Becca

Annotation: Outer membrane porin protein OmpD

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 50 100 150 200 250 300 360 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details PF13609: Porin_4" amino acids 10 to 331 (322 residues), 80.8 bits, see alignment E=1.6e-26 PF00267: Porin_1" amino acids 29 to 360 (332 residues), 510.5 bits, see alignment E=2.6e-157

Best Hits

Swiss-Prot: 90% identical to PORI_BPPA2: Outer membrane porin protein LC (LC) from Enterobacteria phage PA-2

KEGG orthology group: None (inferred from 99% identity to eoj:ECO26_0593)

MetaCyc: 64% identical to outer membrane porin N (Escherichia coli K-12 substr. MG1655)
RXN0-2481

Predicted SEED Role

"Outer membrane porin protein NmpC precursor"

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

Find the best match in UniProt

Protein Sequence (360 amino acids)

>EFB2_02013 Outer membrane porin protein OmpD (Escherichia fergusonii Becca)
MKKLTVAISAVAASVLMAMSAQAAEIYNKDSNKLDLYGKVNAKHYFSSNDADDGDTTYVR
LGFKGETQINDQLTGFGQWEYEFKGNRAESQGSSKDKTRLAFAGLKFGDYGSIDYGRNYG
VAYDIGAWTDVLPEFGGDTWTQTDVFMTGRTTGVATYRNNDFFGLVDGLNFAAQYQGKND
RTDVTEANGDGFGFSTTYEYEGFGVGATYAKSDRTNDQVIYGNNSLNASGQNAEVWAAGL
KYDANNIYLATTYSETQNMTVFGNNHIANKAQNFEVVAQYQFDFGLRPSVAYLQSKGKDL
GAWGDQDLVEYIDVGATYYFNKNMSTFVDYKINLIDKSDFTKASGVATDDIVAVGLVYQF