Protein Info for PP_3946 in Pseudomonas putida KT2440

Annotation: HTH-type transcriptional repressor NicR

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 50 100 158 PF12802: MarR_2" amino acids 47 to 103 (57 residues), 39.8 bits, see alignment E=6.3e-14 PF13463: HTH_27" amino acids 47 to 113 (67 residues), 28.3 bits, see alignment E=2.7e-10 PF01047: MarR" amino acids 47 to 105 (59 residues), 39.6 bits, see alignment E=6.1e-14

Best Hits

Swiss-Prot: 100% identical to NICR_PSEPK: HTH-type transcriptional repressor NicR (nicR) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: None (inferred from 100% identity to ppu:PP_3946)

Predicted SEED Role

"Transcriptional regulator, MarR family"

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 Q88FY0 at UniProt or InterPro

Protein Sequence (158 amino acids)

>PP_3946 HTH-type transcriptional repressor NicR (Pseudomonas putida KT2440)
MSKKTTPSSAPLDNTPYDVTEQVGHLLRKAYQRHTAIFQQQACDPQLTSIQFVTLCALRD
HGPSSQAELIKATAVDQATIRGIVERLKARELVQLSPDPGDRRKVIVELTESGAALLDAM
IPCARQISELSMGSLNAGERVAILYLLRKMIDSDENAG