Protein Info for GFF3023 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: Hydroxymethylpyrimidine ABC transporter, substrate-binding component

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 50 100 150 200 250 300 341 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF13379: NMT1_2" amino acids 27 to 257 (231 residues), 79 bits, see alignment E=1e-25 PF09084: NMT1" amino acids 42 to 255 (214 residues), 83 bits, see alignment E=5.9e-27 PF12974: Phosphonate-bd" amino acids 72 to 222 (151 residues), 33.3 bits, see alignment E=7.3e-12 PF16868: NMT1_3" amino acids 94 to 188 (95 residues), 30.3 bits, see alignment E=6.5e-11

Best Hits

KEGG orthology group: K02051, sulfonate/nitrate/taurine transport system substrate-binding protein (inferred from 69% identity to hse:Hsero_3676)

Predicted SEED Role

"Hydroxymethylpyrimidine ABC transporter, substrate-binding component" in subsystem Thiamin biosynthesis

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

Find the best match in UniProt

Protein Sequence (341 amino acids)

>GFF3023 Hydroxymethylpyrimidine ABC transporter, substrate-binding component (Hydrogenophaga sp. GW460-11-11-14-LB1)
MQRRHLVAGGLAAAALPSFAFAQGLEKPKVTIAVGGKNLLYYLPLTIAEQLGYFKAEGLD
VTIVDFAGGSRALAAVVGGSADVVSGAFEHTVNMQFKGQPMRAFALQGLAPQIVLGVNPK
TMGGFKAITDLKGKKIGVTAPGSSTNVMVNFVLAKAGLKPSDVSIVGVGAGNGAVAAMRA
GQIDAISNLDPVITLLQRSGDLKIISDTRIVAESAKVFGGPMPAACLYAPQPFLDKNPNT
TQALTNAIVRADKWIQAAGPGDIIKAVPESYLLGDRAVYIDAFMAAKGALSPDGSFPAKG
ADTAFRALASVDAELAKAKLDLNAVYTNNFVQKANAKYPKG