Protein Info for AMB_RS00820 in Magnetospirillum magneticum AMB-1
Annotation: GDP-L-fucose synthase
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: 57% identical to FCL_SINFN: GDP-L-fucose synthase (fcl) from Sinorhizobium fredii (strain NBRC 101917 / NGR234)
KEGG orthology group: K02377, GDP-L-fucose synthase [EC: 1.1.1.271] (inferred from 100% identity to mag:amb0161)MetaCyc: 57% identical to GDP-4-keto-6-deoxymannose-3,5-epimerase-4-reductase (Arabidopsis thaliana col)
GDP-L-fucose synthase. [EC: 1.1.1.271]
Predicted SEED Role
"dTDP-glucose 4,6-dehydratase (EC 4.2.1.46)" in subsystem Rhamnose containing glycans or dTDP-rhamnose synthesis or linker unit-arabinogalactan synthesis (EC 4.2.1.46)
MetaCyc Pathways
- colanic acid building blocks biosynthesis (11/11 steps found)
- O-antigen building blocks biosynthesis (E. coli) (10/11 steps found)
- dTDP-β-L-rhamnose biosynthesis (5/5 steps found)
- GDP-L-fucose biosynthesis I (from GDP-D-mannose) (3/3 steps found)
- dTDP-3-acetamido-α-D-fucose biosynthesis (3/5 steps found)
- dTDP-4-O-demethyl-β-L-noviose biosynthesis (3/5 steps found)
- dTDP-β-D-fucofuranose biosynthesis (2/4 steps found)
- dTDP-6-deoxy-α-D-allose biosynthesis (2/4 steps found)
- dTDP-N-acetylthomosamine biosynthesis (2/4 steps found)
- dTDP-N-acetylviosamine biosynthesis (2/4 steps found)
- superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis (9/14 steps found)
- dTDP-α-D-ravidosamine and dTDP-4-acetyl-α-D-ravidosamine biosynthesis (3/6 steps found)
- dTDP-D-desosamine biosynthesis (3/6 steps found)
- dTDP-L-daunosamine biosynthesis (3/6 steps found)
- dTDP-sibirosamine biosynthesis (3/6 steps found)
- dTDP-α-D-olivose, dTDP-α-D-oliose and dTDP-α-D-mycarose biosynthesis (5/9 steps found)
- dTDP-α-D-mycaminose biosynthesis (2/5 steps found)
- dTDP-3-acetamido-3,6-dideoxy-α-D-glucose biosynthesis (2/5 steps found)
- dTDP-β-L-4-epi-vancosamine biosynthesis (4/8 steps found)
- dTDP-β-L-digitoxose biosynthesis (3/7 steps found)
- dTDP-β-L-olivose biosynthesis (3/7 steps found)
- dTDP-β-L-megosamine biosynthesis (3/8 steps found)
- dTDP-β-L-mycarose biosynthesis (2/7 steps found)
- dTDP-α-D-forosamine biosynthesis (3/9 steps found)
- superpathway of enterobacterial common antigen biosynthesis (3/10 steps found)
- superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis (6/19 steps found)
- superpathway of novobiocin biosynthesis (4/19 steps found)
- superpathway of erythromycin biosynthesis (3/19 steps found)
- superpathway of dTDP-glucose-derived antibiotic building blocks biosynthesis (5/23 steps found)
- superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis (12/33 steps found)
- superpathway of megalomicin A biosynthesis (4/22 steps found)
KEGG Metabolic Maps
- Biosynthesis of vancomycin group antibiotics
- Fructose and mannose metabolism
- Nucleotide sugars metabolism
- Polyketide sugar unit biosynthesis
- Streptomycin biosynthesis
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.271, 4.2.1.46
Use Curated BLAST to search for 1.1.1.271 or 4.2.1.46
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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
See Q2WB10 at UniProt or InterPro
Protein Sequence (314 amino acids)
>AMB_RS00820 GDP-L-fucose synthase (Magnetospirillum magneticum AMB-1) MAVVYSLAGKRVWVAGHRGMAGSAIVRRLEREDCRVLTVGHAELDLRDQAATLAWMEANR PQAVFFAAGTVGGILANSTRPAEFLYDNLAMITNAVSASRQTGVEKLLYLGSSCIYPRLA AQPMAEDALLTGPLEPTNEWYAIAKIAGIKLCQAFRRQWGCDFISAMPTNLYGPGDNYHP EHSHVVAALIRRAHEARDAGAPELVIWGTGTPLREFLAADDLADACVFLMKAYSAEAHVN VGTGIEHSIRQLAETVAKVVDYRGRLVFDVSKPDGSPRKLMDVGRMTELGWKAPTGLEDG LRAAYAWYVANLGK