Protein Info for GFF1019 in Pseudomonas sp. DMC3

Annotation: Oligopeptide-binding protein AppA

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 50 100 150 200 250 300 350 400 450 500 550 613 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF00496: SBP_bac_5" amino acids 102 to 506 (405 residues), 232.3 bits, see alignment E=5.2e-73

Best Hits

Swiss-Prot: 44% identical to Y4WM_SINFN: Uncharacterized protein y4wM (NGR_a00920) from Sinorhizobium fredii (strain NBRC 101917 / NGR234)

KEGG orthology group: K13893, microcin C transport system substrate-binding protein (inferred from 93% identity to pfo:Pfl01_2181)

Predicted SEED Role

"ABC transporter, periplasmic substrate-binding protein"

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 (613 amino acids)

>GFF1019 Oligopeptide-binding protein AppA (Pseudomonas sp. DMC3)
MNAVRTLLVQAGGLLFAGLAWAAPQHAVTLYNEPPKYPADFKHFDYVNPDAPKGGVFRQA
GFGGFDSLNPFINKGVPADDIGQIYDTLTKHSLDEPFTEYGLIASKIEKADDNSWVRFYL
RPEARFHDGHPVRAEDVVFSFETLTKEGSPMFRGYYNDVAEAIAEDPLKVLFKFKHSNNR
ELPLILGQLPVLPKHWWASRDFNKGNLEIPLGSGPYKVTQVKAGRSVRYERVKDYWGKDL
PVNRGFYNFDTMTTDYYRDNTVALEALKAGQFDYWLEMTAKNWASAYNVPAVAEGRLIKE
LIPNSNPTGMQGFVFNLRRPVFQDVRVRQALGLLFDFEWTNKQLFNGAYVRTRSYFENSE
MAATGLPDAEQRKILEPFRSQLPAQVFSEAFENPKTDASGMIRTQQREAYQLLQEAGWKI
VDDKMVDATGKPVVIEFLLAQTEFERVLLPFKRNLSDLGIDLVIRRVDVSQYINRVRSRD
FDMMVGSFPQSNSPGNEQREYWMSAAADKPSSRNSMGLKDPTVDQLVESLINADSRKSLV
AHARALDRVLQWGYYVVPNWHIKSWRVAYWNHIGHPKTSPKYDIGINTWWVKPDAKPAVE
VETQLQADPAGTE