Protein Info for Atu3088 in Agrobacterium fabrum C58

Annotation: spermidine/putrescine ABC transporter substrate-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 50 100 150 200 250 300 350 400 429 transmembrane" amino acids 20 to 40 (21 residues), see Phobius details PF13416: SBP_bac_8" amino acids 59 to 349 (291 residues), 78.3 bits, see alignment E=4.4e-26

Best Hits

KEGG orthology group: K02055, putative spermidine/putrescine transport system substrate-binding protein (inferred from 100% identity to atu:Atu3088)

Predicted SEED Role

"Oligopeptide ABC transporter, periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1)" in subsystem ABC transporter oligopeptide (TC 3.A.1.5.1) or Sex pheromones in Enterococcus faecalis and other Firmicutes (TC 3.A.1.5.1)

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 A9CEN1 at UniProt or InterPro

Protein Sequence (429 amino acids)

>Atu3088 spermidine/putrescine ABC transporter substrate-binding protein (Agrobacterium fabrum C58)
MTDITNSNKGLSRRGLLKAGAAATGAAIGSGLITGFPTIWAQNPITIRQFGTGVSNLNAI
AEKCKADLGITLEMTATDSDAAAQRAVTQPNSYDIADIEYWILKKVYPAGVIQPMEIKKL
KYYDKIVPLFKNGKLTPDSVVAQGTAPHTVGFVEKPGDKKFAKSETEYFTMVPTIYNADT
LGIRPDLVGRDITSWADIMDPKFKGKTSILNIPSIGIMDAAMIMEAMGNIKYADKGNMTK
EEIDKTIDFLIKAKKDGQFRAFWKSFDESVNLMASGEVIIQSMWSPAVAAVRSKGIACKY
QPLKEGYRSWGGGLGLAKHLSGAKLDAAYEYINWYTSGWVGAYLNRQGYYSAAMDTAKEH
MSADEWGYWVEGKPAQGDIIAPDGKVMEKAGAVRDGGSFQERMGKVACWNSVMDEDRYMV
RRWNEFIAA