Protein Info for PS417_26110 in Pseudomonas simiae WCS417

Annotation: 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 50 100 150 200 236 transmembrane" amino acids 28 to 51 (24 residues), see Phobius details amino acids 66 to 86 (21 residues), see Phobius details amino acids 98 to 119 (22 residues), see Phobius details amino acids 173 to 197 (25 residues), see Phobius details amino acids 203 to 221 (19 residues), see Phobius details TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 21 to 127 (107 residues), 75.8 bits, see alignment E=1.6e-25 PF00528: BPD_transp_1" amino acids 41 to 232 (192 residues), 87.6 bits, see alignment E=4.5e-29

Best Hits

Swiss-Prot: 35% identical to NOCM_AGRFC: Nopaline transport system permease protein NocM (nocM) from Agrobacterium fabrum (strain C58 / ATCC 33970)

KEGG orthology group: K02029, polar amino acid transport system permease protein (inferred from 88% identity to pfs:PFLU5635)

Predicted SEED Role

"Histidine ABC transporter, permease protein HisM (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 A0A1N7USW8 at UniProt or InterPro

Protein Sequence (236 amino acids)

>PS417_26110 ABC transporter permease (Pseudomonas simiae WCS417)
MNIESLLSALLNLELFERYAPRFIDGLLVTAKLVAISFSLGALLGLLLALGRLSSNRWLR
GITGTYMYFFRGSPLLAQLFMLYYGLGSFKSFWQDVGLWWFFRDAWLCTLLAFTLNTAAY
QAEIMRGALTAVAPGQREAAQMLGLSRWATLQKVILPQSLLVAVGPLGNELILMIKASSI
ASLVTLYDLMGVAKLAFSRSFDFQIYLWAAVLYLAIVEVVRRTLRRLERSLSKHIG