Protein Info for COO64_RS11700 in Pseudomonas sp. SVBP6

Annotation: amino acid ABC transporter permease

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 50 100 150 200 250 300 350 392 transmembrane" amino acids 20 to 39 (20 residues), see Phobius details amino acids 83 to 111 (29 residues), see Phobius details amino acids 132 to 151 (20 residues), see Phobius details amino acids 181 to 202 (22 residues), see Phobius details amino acids 215 to 235 (21 residues), see Phobius details amino acids 254 to 276 (23 residues), see Phobius details amino acids 334 to 352 (19 residues), see Phobius details amino acids 358 to 383 (26 residues), see Phobius details TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 83 to 146 (64 residues), 53.5 bits, see alignment E=1.4e-18 PF00528: BPD_transp_1" amino acids 220 to 387 (168 residues), 57.1 bits, see alignment E=1.1e-19

Best Hits

Swiss-Prot: 64% identical to YHDX_ECOLI: Putative amino-acid ABC transporter permease protein YhdX (yhdX) from Escherichia coli (strain K12)

KEGG orthology group: K09970, general L-amino acid transport system permease protein (inferred from 92% identity to ppu:PP_1298)

Predicted SEED Role

"Glutamate Aspartate transport system permease protein GltJ (TC 3.A.1.3.4)" (TC 3.A.1.3.4)

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 (392 amino acids)

>COO64_RS11700 amino acid ABC transporter permease (Pseudomonas sp. SVBP6)
MQNNIGAPKGLSLSDPRVRAWLFQILTVVAVVGLGWYLFHNTQTNLQHRGITSGFDFLER
SAGFGIAQHLISYTEQDSYARVFVIGLLNTLLVTFIGIILATLLGFIIGVARLSPNWMIS
KLATVYVETFRNIPPLLQILFWYFAVFLTLPGPRGSINLNDTFFISNRGLNMPGASMAEG
FWPFVVSLALAIVAIVLMVRLANRRFEATGEPFHKFWVGLFLFFGIPALGVLLFGSPLHW
DMPQLKGFNFVGGWVLIPELLALTLALTIYTAAFIAEIVRSGIRSVSYGQTEAARSLGLR
EGPTLRKVIIPQALRVIIPPLTSQYLNLAKNSSLAAGIGYPEMVSLFAGTVLNQTGQAIE
VIAITMSVYLAISISISLLMNWYNKRIALIER