Protein Info for GFF995 in Variovorax sp. SCN45

Annotation: (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase (flavodoxin) (EC 1.17.7.3)

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 50 100 150 200 250 300 350 424 TIGR00612: 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase" amino acids 23 to 409 (387 residues), 376.8 bits, see alignment E=5.6e-117 PF04551: GcpE" amino acids 30 to 409 (380 residues), 372.3 bits, see alignment E=1.1e-115

Best Hits

Swiss-Prot: 72% identical to ISPG_RALSO: 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG) from Ralstonia solanacearum (strain GMI1000)

KEGG orthology group: K03526, (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase [EC: 1.17.7.1] (inferred from 97% identity to vpe:Varpa_3703)

Predicted SEED Role

"1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase (EC 1.17.7.1)" in subsystem Isoprenoid Biosynthesis (EC 1.17.7.1)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.17.7.1

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 (424 amino acids)

>GFF995 (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase (flavodoxin) (EC 1.17.7.3) (Variovorax sp. SCN45)
MSDCLLPIESAAPKARRSRQASVVWGPRVVTVGGDAPVRVQSMTNTDTVDAIGTAIQVKE
LALAGSEMVRITVNTPEAAAQVPYIREQLDRMGVDVPLIGDFHYNGHRLLTDYPACAEAL
SKYRINPGNVGKGDKKDKQFGQMIDAAMRWNKPVRIGVNWGSLDQELLASLMDTNSQRAQ
PWDAKQVMYEALITSAIESAKLAESMGMAGNQVILSCKVSGVQDLISVYRELARRCEYPL
HLGLTEAGMGTKGTVASATALSILLQEGIGDTIRVSLTPQPGESRTQEVLIANEILQALG
LRVFVPSVTACPGCGRTTSTTFQELAKQIDDYLRMQMPVWRKKYPGVETLKVAVMGCIVN
GPGESKHADIGISLPGTGEAPAAPVFIDGEKALTLRGDNIANEFHQLVETYIEKRFGGEH
AVAA