Protein Info for DDA3937_RS01175 in Dickeya dadantii 3937

Annotation: phosphomethylpyrimidine synthase ThiC

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

• PF13667: ThiC-associated
  • amino acids 9 to 90 (82 residues), 105.2 bits, E=1.3e-34
• TIGR00190: phosphomethylpyrimidine synthase
  • amino acids 129 to 581 (453 residues), 741.8 bits, E=1e-227
• PF01964: ThiC_Rad_SAM
  • amino acids 130 to 578 (449 residues), 624.5 bits, E=8.4e-192

Best Hits

Swiss-Prot: 89% identical to THIC_PECAS: Phosphomethylpyrimidine synthase (thiC) from Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)

KEGG orthology group: K03147, thiamine biosynthesis protein ThiC (inferred from 100% identity to ddd:Dda3937_00235)

MetaCyc: 87% identical to phosphomethylpyrimidine synthase (Escherichia coli K-12 substr. MG1655)
PYRIMSYN1-RXN [EC: 4.1.99.17]

Predicted SEED Role

"Hydroxymethylpyrimidine phosphate synthase ThiC (EC 4.1.99.17)" (EC 4.1.99.17)

MetaCyc Pathways

• superpathway of thiamine diphosphate biosynthesis I (10/10 steps found)
• superpathway of thiamine diphosphate biosynthesis II (9/11 steps found)
• 4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis I (2/2 steps found)
• superpathway of thiamine diphosphate biosynthesis III (eukaryotes) (3/7 steps found)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.1.99.17

Sequence Analysis Tools

See E0SGG9 at UniProt or InterPro

Protein Sequence (623 amino acids)

>DDA3937_RS01175 phosphomethylpyrimidine synthase ThiC (Dickeya dadantii 3937)
MDTLRGSTFPNSQRIYLTGSQPDIRVPMREIQLSPTLLGGSRDNPRYEANEAVPVYDTAG
PYGDPAITPDVHRGLGKLRADWITGRDDTEALPKASSGFTQQRLADIGLDHLRFEHLPQP
KRAKAGRRVTQLHYARQGIITPEMEFIAIRENMGRERVRGEVLRQQHPGHSFGALLPDNI
TPEFVRQEVAAGRAIIPANINHPESEPMIIGRNFLVKVNANIGNSAVTSSIEEEVEKLVW
ATRWGADTVMDLSTGRYIHETREWILRNSPVPIGTVPIYQALEKVNGIAENLTWELFRDT
LLEQAEQGVDYFTIHAGVLLRYVPMTAKRLTGIVSRGGSIMAKWCLSHHQENFLYQHFRD
ICDICSAYDVALSLGDGLRPGSIQDANDEAQFAELHTLGELTKIAWEYDVQVMIEGPGHV
PMQMIRRNMTEELEHCHEAPFYTLGPLTTDIAPGYDHFTSGIGAAMIGWFGCAMLCYVTP
KEHLGLPNKNDVKQGLIAYKIAAHAADLAKGHPGAQIRDNAMSKARFEFRWEDQFNLALD
PETARAYHDETLPQESGKVAHFCSMCGPKFCSMKITQEVRDYAARQGAQAQPVDVGMAQM
SAEFRARGSELYHTATSLPQEER