Protein Info for PP_4407 in Pseudomonas putida KT2440

Annotation: putative Gamma-aminobutyrate 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 50 100 150 200 250 300 350 400 460 transmembrane" amino acids 15 to 37 (23 residues), see Phobius details amino acids 43 to 62 (20 residues), see Phobius details amino acids 77 to 96 (20 residues), see Phobius details amino acids 116 to 138 (23 residues), see Phobius details amino acids 150 to 173 (24 residues), see Phobius details amino acids 198 to 220 (23 residues), see Phobius details amino acids 238 to 259 (22 residues), see Phobius details amino acids 271 to 296 (26 residues), see Phobius details amino acids 328 to 349 (22 residues), see Phobius details amino acids 361 to 380 (20 residues), see Phobius details amino acids 397 to 419 (23 residues), see Phobius details amino acids 425 to 444 (20 residues), see Phobius details PF00324: AA_permease" amino acids 14 to 442 (429 residues), 315.6 bits, see alignment E=5.4e-98 PF13520: AA_permease_2" amino acids 14 to 435 (422 residues), 150.8 bits, see alignment E=6e-48

Best Hits

Swiss-Prot: 38% identical to GABP_BACSU: GABA permease (gabP) from Bacillus subtilis (strain 168)

KEGG orthology group: None (inferred from 100% identity to ppu:PP_4407)

MetaCyc: 38% identical to 4-aminobutanoate:H+ symporter (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-384; TRANS-RXN-57

Predicted SEED Role

"gamma-aminobutyrate (GABA) permease"

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

See Q88EP6 at UniProt or InterPro

Protein Sequence (460 amino acids)

>PP_4407 putative Gamma-aminobutyrate transporter (Pseudomonas putida KT2440)
MQSHGLKQSLKQRHITMIALGGVIGAGLFMGSGSLIASAGPAAILSYFIGGLVVTLVMFM
LGEMACRNPDAGSFSTYANTYLGDWAGFAVGWLYWFKSMMTITLEAVLLGAILHDFLPWL
PIWAGAFLMLVTLMASNAYSVRSFAEVEYWLAAMKVATILIFMLLGVSILLGLHSDIPAP
GLINLTAHDGFMPNGLSPVMAGVIVVIFSLGGSEIAAVAAGESENPRQNVIRAIKSVILR
VMLFYVGSVSILILCLPWTDKANLASPYVSLFSLAGFGGAAVAMKLVLFVSFMSVMNSFM
FSNSRMLFSLSQRGHAPKLFSRTSAKGVPINALLLSLSICTMILTVHFVSGGDLFMTLAK
STGSLVMVVWIFIIIAHVAMRIKTRHEAVAPNAFRAWLFPYTNIIALFALLAVIGTQAFD
PASRFQFWFTVLTVLLVVAGYFLMRQRLASSAVLAHERDA