Protein Info for GFF1436 in Variovorax sp. SCN45

Annotation: CaiB/BaiF family 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

Best Hits

Swiss-Prot: 35% identical to ACOCT_ECOLI: Acetyl-CoA:oxalate CoA-transferase (yfdE) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 79% identity to dac:Daci_0062)

MetaCyc: 48% identical to succinyl-CoA-glutarate CoA-transferase (Pseudomonas putida)
Succinate--hydroxymethylglutarate CoA-transferase. [EC: 2.8.3.13]

Predicted SEED Role

"L-carnitine dehydratase/bile acid-inducible protein F (EC 2.8.3.16)" (EC 2.8.3.16)

MetaCyc Pathways

L-lysine degradation X (4/6 steps found)
oxalate degradation II (1/3 steps found)
L-lysine degradation IV (2/5 steps found)
superpathway of L-lysine degradation (12/43 steps found)

Isozymes

Compare fitness of predicted isozymes for: 2.8.3.16

Use Curated BLAST to search for 2.8.3.13 or 2.8.3.16

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 (402 amino acids)

>GFF1436 CaiB/BaiF family protein (Variovorax sp. SCN45)
MPQAAHVQPLAGLRVLDLSRVLAGPMCAMALADLGADVIKVEHPSRGDDTRDWGVRVGAR
NTSYFNSANRNKRSVTIDLQSAAGAQIARELAEKSDVVIENFKVGGADKLGLGYEQLSAS
NPRLVYCSISGYARSTSEAQRPGYDLLVQGEAGIMAMNGEAGQGPLKFGVAAVDMFTGMY
AGQAILAALYERHATGRGRHVQMALYDCGLMITSYYGMEALLKAGDPPKFGNAHPSIVPY
GVFDAADGPVVITVGNNGQFVRFCEQVVGRPEWATDPRFATNTERSANREILLPLVREAL
RGLRRQELLASLAAASIPCGEVLGMHEALTSPRTAQANLLHHFDDPEAGRQSVLAPPYVM
DGERAPVRRPPPHLGQHTDEVLRDVLAMDDQAIAAARAQQAI