Protein Info for PP_0412 in Pseudomonas putida KT2440

Annotation: Polyamine ABC transporter, periplasmic polyamine-binding protein

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 50 100 150 200 250 300 344 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF01547: SBP_bac_1" amino acids 42 to 281 (240 residues), 43.4 bits, see alignment E=7e-15 PF13416: SBP_bac_8" amino acids 47 to 307 (261 residues), 166.9 bits, see alignment E=1.4e-52 PF13343: SBP_bac_6" amino acids 121 to 297 (177 residues), 46.1 bits, see alignment E=6.9e-16

Best Hits

KEGG orthology group: K02055, putative spermidine/putrescine transport system substrate-binding protein (inferred from 100% identity to ppf:Pput_0446)

Predicted SEED Role

"ABC transporter, periplasmic spermidine putrescine-binding protein PotD (TC 3.A.1.11.1)" in subsystem Polyamine Metabolism (TC 3.A.1.11.1)

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 Q88QS6 at UniProt or InterPro

Protein Sequence (344 amino acids)

>PP_0412 Polyamine ABC transporter, periplasmic polyamine-binding protein (Pseudomonas putida KT2440)
MRKQLKLTALALGLFTAGQAMAADLTVISFGGANKAAQVKAFYEPWEKAGNGKIVAGEYN
GEMAKVKAMVDTKSVSWNLVEVESPELARGCDEGMFEELDPALFGNEADYVPGAIQPCGV
GFFVWSTVMAYNADKLKTAPTSWADFWDTKQFPGKRGLRKGAKYTMEFALMADGVAPKDV
YKVLATKEGQDRAFKKLDELKPSIQWWEAGAQPPQFLASGDVVMSSAYNGRIAAVQKESN
LKVVWNGGIYDFDAWAIPKGAKNVEEAKKFIAYSVKPEQQKIYSENIAYGPANSKAVSLL
SDEVKKDMPTTPENIANQVQIDVAFWADNSEQLEQRFNAWAAKK