Protein Info for GFF3954 in Variovorax sp. SCN45
Annotation: Similar to cobalamin biosynthesis protein CbiB
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
KEGG orthology group: K02227, adenosylcobinamide-phosphate synthase CobD [EC: 6.3.1.10] (inferred from 93% identity to vpe:Varpa_1634)Predicted SEED Role
"Adenosylcobinamide-phosphate synthase (EC 6.3.1.10)" (EC 6.3.1.10)
MetaCyc Pathways
- adenosylcobinamide-GDP biosynthesis from cobyrinate a,c-diamide (6/6 steps found)
- superpathway of adenosylcobalamin salvage from cobinamide II (8/9 steps found)
- adenosylcobinamide-GDP salvage from cobinamide II (5/6 steps found)
- adenosylcobalamin biosynthesis II (aerobic) (23/33 steps found)
- adenosylcobalamin biosynthesis I (anaerobic) (22/36 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 6.3.1.10
Use Curated BLAST to search for 6.3.1.10
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 (333 amino acids)
>GFF3954 Similar to cobalamin biosynthesis protein CbiB (Variovorax sp. SCN45) MSFFAILCALLIEQVRPLGPHNPVYGSVLAWTRWTSRNFDAGKPHHGWIAWGLAVFVPTL LALGVHWLLVLTLGLPFAVLWSIAVLYVTLGFRQFSHHFTDIRDALDEGDEPLARSLLAH WQGVDAADLPRSEIVRHVIEHSVIAAHRHVFGVLAWFSIIAAIGLGPAGAVFYRMSEFVS RYWAHKNGAAVQPSSVSVQEAADRAWHAVDWLPARITALGFAVVGSFEEAIDCWRNDAQR FPNENDGVILAATSGAVNVRLGGGSLRPIPTLDPLSRAQAGDSIADGRAPDSGSTPGREP EPAHLRSVVGLVWRSVVMWMVLLALLTLARLLG