Protein Info for GFF577 in Xanthobacter sp. DMC5

Annotation: Riboflavin biosynthesis protein RibD

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 50 100 150 200 250 300 350 382 PF00383: dCMP_cyt_deam_1" amino acids 15 to 117 (103 residues), 52.5 bits, see alignment E=5.8e-18 TIGR00326: riboflavin biosynthesis protein RibD" amino acids 21 to 376 (356 residues), 294.9 bits, see alignment E=4.3e-92 PF14437: MafB19-deam" amino acids 40 to 125 (86 residues), 33.4 bits, see alignment E=5.9e-12 PF01872: RibD_C" amino acids 165 to 351 (187 residues), 135.4 bits, see alignment E=3.4e-43

Best Hits

KEGG orthology group: K11752, diaminohydroxyphosphoribosylaminopyrimidine deaminase / 5-amino-6-(5-phosphoribosylamino)uracil reductase [EC: 1.1.1.193 3.5.4.26] (inferred from 84% identity to xau:Xaut_4278)

Predicted SEED Role

"Diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC 3.5.4.26) / 5-amino-6-(5-phosphoribosylamino)uracil reductase (EC 1.1.1.193)" in subsystem Riboflavin, FMN and FAD metabolism (EC 1.1.1.193, EC 3.5.4.26)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.193, 3.5.4.26

Use Curated BLAST to search for 1.1.1.193 or 3.5.4.26

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 (382 amino acids)

>GFF577 Riboflavin biosynthesis protein RibD (Xanthobacter sp. DMC5)
MSGRPVPSAPVLSPREDELFMAEALKVGQTGLGRTWPNPSVGAVVVQHVDGVPRVVSSAA
TAATGRPHAEPQALAAAGELARGSTLYVTLEPCSHHGRTPPCADAVINAGVARVVAAIED
PDHRVKGRGVARLRAAGIWVTVGVGAEQALFDHAGHIRRVTEGRPHVLVKMAISSDGKAA
HAGPNPAVVTGAEARARAHLMRAHTDAILVGLGTVLADDPMLTCRLEGYENRSPVRLVLD
AELDIPLTAALVRTACDVPLWVIAAEDAPAHRAAALNERGVEVLRAPRGADGHINIPAVV
KLLGLLGLTRLMVEGGPTTAARFLDAGVVDEVAVFRSPVILGPDAYPALAGRPLIRLTQP
VGFAEVERAELGADHLVRLWRR