Protein Info for GFF386 in Sphingobium sp. HT1-2

Annotation: Formamidopyrimidine-DNA glycosylase (EC 3.2.2.23)

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 50 100 150 200 270 TIGR00577: DNA-formamidopyrimidine glycosylase" amino acids 1 to 269 (269 residues), 254.8 bits, see alignment E=4.6e-80 PF01149: Fapy_DNA_glyco" amino acids 1 to 113 (113 residues), 111.1 bits, see alignment E=4.9e-36 PF06831: H2TH" amino acids 131 to 221 (91 residues), 85.7 bits, see alignment E=1.8e-28

Best Hits

Swiss-Prot: 75% identical to FPG_SPHWW: Formamidopyrimidine-DNA glycosylase (mutM) from Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273)

KEGG orthology group: K10563, formamidopyrimidine-DNA glycosylase [EC: 3.2.2.23 4.2.99.18] (inferred from 84% identity to sch:Sphch_2916)

MetaCyc: 42% identical to DNA-formamidopyrimidine glycosylase (Escherichia coli K-12 substr. MG1655)
DNA-formamidopyrimidine glycosylase. [EC: 3.2.2.23]; 3.2.2.23 [EC: 3.2.2.23]; 3.2.2.23 [EC: 3.2.2.23]; RXN-21279 [EC: 3.2.2.23]

Predicted SEED Role

"Formamidopyrimidine-DNA glycosylase (EC 3.2.2.23)" in subsystem DNA Repair Base Excision (EC 3.2.2.23)

Isozymes

Compare fitness of predicted isozymes for: 4.2.99.18

Use Curated BLAST to search for 3.2.2.23 or 4.2.99.18

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 (270 amino acids)

>GFF386 Formamidopyrimidine-DNA glycosylase (EC 3.2.2.23) (Sphingobium sp. HT1-2)
MPELPEVETTVSGLRSVLQGATLTRVEPRRADLRFPIPVDLRQRMTGATVTGLSRRAKYG
LIETDRGDMMIFHLGMSGRWRIDPAEIGAHDHLLLETGSGHLLSLNDPRRFGSLDLVRSD
AWQGYAPFTRMGPEPLGPDFDAAYLAQALDGKATSIKAALLDQRIVAGLGNIYVCEALNM
AGIAPTRAAGRISKPQLGSLVEAIRTVLSAAIVAGGSTLRDYARPDGELGYFSNQWRVYG
REGQICPCGGTVQRRVDGGRSTFHCPKCQK