Protein Info for GFF257 in Xanthobacter sp. DMC5

Annotation: Phosphomethylpyrimidine 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

1 50 100 150 200 250 300 350 400 450 500 550 624 transmembrane" amino acids 455 to 474 (20 residues), see Phobius details PF13667: ThiC-associated" amino acids 16 to 86 (71 residues), 94.2 bits, see alignment E=3.5e-31 TIGR00190: phosphomethylpyrimidine synthase" amino acids 128 to 574 (447 residues), 698.6 bits, see alignment E=1.3e-214 PF01964: ThiC_Rad_SAM" amino acids 128 to 572 (445 residues), 619.5 bits, see alignment E=2.7e-190

Best Hits

Swiss-Prot: 74% identical to THIC_ERYLH: Phosphomethylpyrimidine synthase (thiC) from Erythrobacter litoralis (strain HTCC2594)

KEGG orthology group: K03147, thiamine biosynthesis protein ThiC (inferred from 95% identity to xau:Xaut_3515)

Predicted SEED Role

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

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.1.99.17

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 (624 amino acids)

>GFF257 Phosphomethylpyrimidine synthase (Xanthobacter sp. DMC5)
MLDEASTSSLKVTTGPLPHSRKVFVSATRPDVRVAMREISLTDPSEPPVKVYDTSGPYTD
LDAVIDLTKGLPQLRAQWIRERGDVEEVEARAVRPEDNGLKEGQSSTLPQFDLSGRKPLR
AKVGKRPTQMAYARAGIITPEMEYVAARENLAKVNGGAHPHHQAMGLGAAIPSDITPEFV
RQEVARGRAIIPNNINHPETEPMAIGRNFLVKINANIGNSAVTSGVAEEVDKLVWATRWG
ADTVMDLSTGKNIHTIREWIMRNSPVPIGTVPLYQALEKVNGVAEDLTWEIFRDTVIEQA
EQGVDYMTVHAGVRLPFVPLTANRVTGIVSRGGSIMAKWCLAHHKESFLYEHFEELCEIL
AQYDVAFSLGDGLRPGSIADANDAAQFAELETLGQLTEIAWKYDCQVMIEGPGHVPLHLI
RENVEKQLKVCHEAPFYTLGPLVTDISPGYDHISSAIGAAMIGWFGTAMLCYVTPKEHLG
LPDRDDVKAGVISYKIAAHAADLAKGHPAARIRDDALSRARFTFRWRDQFALSLDPETAE
RFHDETLPAEGAKVAHFCSMCGPKFCSMKISQELKLEAGDIARAQADNLASAGMAEMAQK
FRDGGGLIYTPAPEVAPPPPAAAE