Protein Info for GFF1023 in Sphingobium sp. HT1-2

Annotation: Predicted L-lactate dehydrogenase, Iron-sulfur cluster-binding subunit YkgF

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 50 100 150 200 250 300 350 400 471 PF02589: LUD_dom" amino acids 71 to 296 (226 residues), 170 bits, see alignment E=1.5e-53 PF13183: Fer4_8" amino acids 310 to 378 (69 residues), 48.8 bits, see alignment E=2.5e-16 PF13237: Fer4_10" amino acids 313 to 375 (63 residues), 25.1 bits, see alignment E=4e-09 PF13534: Fer4_17" amino acids 313 to 378 (66 residues), 28.8 bits, see alignment E=4.4e-10 PF12838: Fer4_7" amino acids 313 to 377 (65 residues), 28.1 bits, see alignment E=6.8e-10 PF11870: LutB_C" amino acids 406 to 468 (63 residues), 40.1 bits, see alignment E=1.2e-13

Best Hits

Swiss-Prot: 42% identical to YKGF_ECOLI: Uncharacterized electron transport protein YkgF (ykgF) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 72% identity to pde:Pden_2925)

Predicted SEED Role

"Predicted L-lactate dehydrogenase, Iron-sulfur cluster-binding subunit YkgF" in subsystem L-rhamnose utilization or Lactate utilization

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

Find the best match in UniProt

Protein Sequence (471 amino acids)

>GFF1023 Predicted L-lactate dehydrogenase, Iron-sulfur cluster-binding subunit YkgF (Sphingobium sp. HT1-2)
MSGAPAEATSFKARADAALADRILKVAVERTAGTAEAKRAVAVDAFPDFQAARTRAAAIK
DHVVAHLGHYLEQFEANATAAGAKVHWARTADEACDIVIALCKAAKAKSVARSKSMLGEE
IGLPHALAEAGIGRVETDLAEHIIQLADERPSHIIWPAMHKTREQVSALFKAKHRTPHEE
ETIAAMAESARRELRTQMLGADVGISGANFLIADTGAICTVTNEGNAELSLVPPRVHIVT
AGIEKIVPSMPHAVHMLRMLARSATGAALTQYTTFYTGPKRPGDRDGPEEMHIVLVDNGR
TRMREDGLAEMLRCIRCGACMNHCVVFRQIGGHAYGGTYPGPMGAVLTPVLDGLKQSRDL
PNACTMNGKCQEVCPVRIPLPTLLRGWREKSWREGLEPQSLRAGLGLWAWVATRPRLYRM
GTGLAVRAMRLLGSKGWIRSLPLAGGWTRYRDMPKPAAQTFMDQYRKENGR