Protein Info for GFF2008 in Hydrogenophaga sp. GW460-11-11-14-LB1

Annotation: D-Lactate dehydrogenase, cytochrome c-dependent (EC 1.1.2.4)

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 50 100 150 200 250 300 350 400 474 PF01565: FAD_binding_4" amino acids 57 to 194 (138 residues), 139 bits, see alignment E=8.7e-45 PF02913: FAD-oxidase_C" amino acids 231 to 471 (241 residues), 226.2 bits, see alignment E=5.4e-71

Best Hits

Swiss-Prot: 50% identical to LDHD_MOUSE: Probable D-lactate dehydrogenase, mitochondrial (Ldhd) from Mus musculus

KEGG orthology group: K00102, D-lactate dehydrogenase (cytochrome) [EC: 1.1.2.4] (inferred from 84% identity to vap:Vapar_0052)

Predicted SEED Role

"D-Lactate dehydrogenase, cytochrome c-dependent (EC 1.1.2.4)" in subsystem Glycolate, glyoxylate interconversions or Photorespiration (oxidative C2 cycle) (EC 1.1.2.4)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.2.4

Use Curated BLAST to search for 1.1.2.4

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 (474 amino acids)

>GFF2008 D-Lactate dehydrogenase, cytochrome c-dependent (EC 1.1.2.4) (Hydrogenophaga sp. GW460-11-11-14-LB1)
MNAPTALSHLAPEVHQRAVPAEFLAALQARFGAQCSTALVVREQHGRDESIYEVPPPVAV
VFAESTQDVADAVTLAAQHRVPVIPFGVGSSLEGHLLAVQGGISIDVSRMNRVLSINAED
LTVTVQPGVTRKALNEAVKSEGLFFPIDPGADASIGGMSATRASGTNAVRYGTMRENVLA
LEVVTARGEVIRTGTRARKSSAGYDLTRLMVGSEGTLGVMTEITLKLYPLPEAISAATCS
FPTIEAAVRTVIQVIQLGVPIARCELIDHNSVRMVNTHSKLGLREENMLLMEFHGSPASV
KEQAETVQEIASEFGGNAFEWADTPEERTRLWTARHNAYFAAIQSKPGCRAISTDTCVPI
SRLADCLLDSVAEADASGLPYFLVGHVGDGNFHFGYLIDPHKPEEHTLAEELNHKLVARA
LSLEGTCTGEHGVGLHKMDFLITEAGAGAVDMMRTIKRALDPDNIMNPGKIFAL