Protein Info for PS417_26100 in Pseudomonas simiae WCS417

Annotation: amino acid ABC transporter

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 50 100 150 200 253 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF00497: SBP_bac_3" amino acids 28 to 249 (222 residues), 143.8 bits, see alignment E=2.8e-46 PF10613: Lig_chan-Glu_bd" amino acids 42 to 118 (77 residues), 39.2 bits, see alignment E=6.7e-14

Best Hits

KEGG orthology group: K02030, polar amino acid transport system substrate-binding protein (inferred from 90% identity to pfs:PFLU5633)

Predicted SEED Role

"Lysine-arginine-ornithine-binding periplasmic protein precursor (TC 3.A.1.3.1)" in subsystem Arginine and Ornithine Degradation (TC 3.A.1.3.1)

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

See U1TQ93 at UniProt or InterPro

Protein Sequence (253 amino acids)

>PS417_26100 amino acid ABC transporter (Pseudomonas simiae WCS417)
MKKLTSTITTATLWLLCTVAGAAHAETLRIASEGAYPPFNYVDSNNRLHGFDIDIANALC
ERMKVNCTFVTQDWEGMIPALLAKKYDAIVASMNVTEERKKKIAFTNRYYRTPLSVAVAH
DSGISDAQTNFKGLTVGAQSYSTQAIYAEEHYAEAGATVKLYPSQDEAASDLAAGRLDGV
IADKYPLLAWVAGAGKDCCTFLGDIDGTNTDAAIAVRQGDVELRERLNKALDEIVADGTY
KNISRRYFAFDIY