Protein Info for PP_2054 in Pseudomonas putida KT2440

Annotation: putative DNA-binding transcriptional regulator

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 50 100 150 200 250 297 PF00126: HTH_1" amino acids 5 to 64 (60 residues), 82.8 bits, see alignment E=1.9e-27 PF03466: LysR_substrate" amino acids 89 to 293 (205 residues), 181.8 bits, see alignment E=1.7e-57

Best Hits

Swiss-Prot: 52% identical to YBHD_ECOLI: Uncharacterized HTH-type transcriptional regulator YbhD (ybhD) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 100% identity to ppu:PP_2054)

Predicted SEED Role

"LysR family transcriptional regulator clustered with dicarboxylate transport" in subsystem ZZ gjo need homes

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

See Q88L81 at UniProt or InterPro

Protein Sequence (297 amino acids)

>PP_2054 putative DNA-binding transcriptional regulator (Pseudomonas putida KT2440)
MEYELQDIRSFVKIAELGSFHEAAEALHLSQPALSRRIKKLEEGLGTSLLERTTRRVSLT
SVGRDFLPKARRLLDDFEDSILSIRELAERQTGQVTLACIPTAAFYFLPSVIRDYNEQYP
KIRIRLLDLSANDGLEAVLRGEADFGINMMSGQHPDIEFVSLVQEHFVLACRRDHPLANR
ASVTWTELADYRLIGVGRLSGNRMLLDHALSGLNLRPKWFYEVQHLSTSLGMVEAGLGVS
AMPSLAMPNADHPTLVSVPLIEPQVTRTLGLVYRRGASLSPAAEKFVSILLQKWPNR