Protein Info for LRK54_RS09165 in Rhodanobacter denitrificans FW104-10B01

Annotation: DNA repair protein RadC

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 50 100 150 223 PF20582: UPF0758_N" amino acids 3 to 78 (76 residues), 83.5 bits, see alignment E=9.2e-28 TIGR00608: DNA repair protein RadC" amino acids 11 to 223 (213 residues), 215.1 bits, see alignment E=5.3e-68 PF04002: RadC" amino acids 104 to 222 (119 residues), 147.4 bits, see alignment E=1.8e-47

Best Hits

Swiss-Prot: 61% identical to Y4376_PSEMY: UPF0758 protein Pmen_4376 (Pmen_4376) from Pseudomonas mendocina (strain ymp)

KEGG orthology group: K03630, DNA repair protein RadC (inferred from 62% identity to psu:Psesu_0154)

Predicted SEED Role

"DNA repair protein RadC" in subsystem DNA repair, bacterial

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 (223 amino acids)

>LRK54_RS09165 DNA repair protein RadC (Rhodanobacter denitrificans FW104-10B01)
MSIRDWPEGERPREKLLARGSAALSDAELLAVLLGSGSRGKDALALGRELIAGAGSLGAL
LGRSEPHVHVGGLGPAKRARIAAALELARRSLAEQLREQPSLGNPRDSGDYLRARLRHLP
YEVFGCLYLDNRHRVLAFEELFRGTVDGASVHPREVVRACLRHNACAVIFAHNHPSGVAE
PSAADRAITHELRDALQLVGVRVLDHLVIGSGEPVSMAARGLI