Protein Info for HSERO_RS04870 in Herbaspirillum seropedicae SmR1

Updated annotation (from data): glycerol ABC transporter, substrate-binding component
Rationale: Specific phenotype: utilization of Glycerol
Original annotation: 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 50 100 150 200 250 300 350 400 450 500 550 582 signal peptide" amino acids 1 to 29 (29 residues), see Phobius details PF13416: SBP_bac_8" amino acids 90 to 431 (342 residues), 35.9 bits, see alignment E=3.8e-13

Best Hits

KEGG orthology group: K02027, multiple sugar transport system substrate-binding protein (inferred from 100% identity to hse:Hsero_0972)

Predicted SEED Role

"Glycerol-3-phosphate ABC transporter, permease protein UgpA (TC 3.A.1.1.3)" in subsystem Glycerol and Glycerol-3-phosphate Uptake and Utilization (TC 3.A.1.1.3)

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 D8J0T4 at UniProt or InterPro

Protein Sequence (582 amino acids)

>HSERO_RS04870 glycerol ABC transporter, substrate-binding component (Herbaspirillum seropedicae SmR1)
MMQNMRKIKLTVLAAAMVMAGVAGNAWADIKAAEKWVDSEFQPSTLSRPQQVSEMQWFID
AAAKLKAKGVKEIHVVSETLDTHAYESKTLAKAFEEITGIKVIHDVIQEGDVVEKMQTSL
QSGKSIYDGWVNDSDLIGTHYRNGQTVVLTDYMAGPGKEYTNPGLDLKDFIGTSFTTAPD
GKLYQLPDQQFANLYWFRADWFARKDLQEKFKAKYGYELGVPQNWSAYEDIAAFFTNDVK
ELDGKKIYGHMDYGKKDPSLGWRFTDAWLSMAGAADKGLPNGLPVDEWGIRVADDKCTPV
GASVARGGATNSPAAVYALTKYLDWMKKYAPPEALGMTFSEAGPVPAQGHIAQQIFWYSA
FTASMTKQGLPVVNADGSPKWRMAPGPHGPYWKDGMQNGYQDVGSWTFLKSTPPDQMAAA
WLYAQFTTSKTVSLKKSIVGVTFIRDSDIRSDYFTKNAAKYGGLIEFYRSPARVAWTPTG
TNVPDYPKMAQIWWKNISSAISGEKTPQGAMDNLADEMDGIMARLQRAGMKQCAPKLNPK
KDPATWLSDKGAPWAKLANEKPKGETIPYDKLLQAWKDGRVR