Protein Info for LRK55_RS10505 in Rhodanobacter denitrificans MT42

Annotation: bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase

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 50 100 150 200 250 275 transmembrane" amino acids 59 to 80 (22 residues), see Phobius details TIGR00577: DNA-formamidopyrimidine glycosylase" amino acids 1 to 274 (274 residues), 275.4 bits, see alignment E=2.4e-86 PF01149: Fapy_DNA_glyco" amino acids 1 to 119 (119 residues), 117.9 bits, see alignment E=5.8e-38 PF06831: H2TH" amino acids 135 to 225 (91 residues), 92.2 bits, see alignment E=2.6e-30 PF06827: zf-FPG_IleRS" amino acids 247 to 274 (28 residues), 43.1 bits, see alignment (E = 4.5e-15)

Best Hits

Swiss-Prot: 68% identical to FPG_STRM5: Formamidopyrimidine-DNA glycosylase (mutM) from Stenotrophomonas maltophilia (strain R551-3)

KEGG orthology group: K10563, formamidopyrimidine-DNA glycosylase [EC: 3.2.2.23 4.2.99.18] (inferred from 70% identity to psu:Psesu_2894)

MetaCyc: 52% 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)

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 (275 amino acids)

>LRK55_RS10505 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase (Rhodanobacter denitrificans MT42)
MPELPEVETTRRGIAPYVVGRRVTGVILRRPDLRWPIPPEIGALLPGQRIDAVERRAKYL
LLHTAAGSALLHLGMTGVLRVLPPDAPVGRHDHVDIALERTSTQAPRILRFTDPRRFGCL
LWQPPDTIHELLAKLGPEPLTDAFDGDLLWHRSRGRTAAVKLFLMDNAVVVGVGNIYASE
ALFRAGIDPRKPAGSLSRARYARLAAEVKHLLAWAIERGGTTLRDFLAPDGAPGYFFREL
MVYGRAGEPCHVCGTAIRQVVLGQRSTFWCPRCQR