Protein Info for PP_3341 in Pseudomonas putida KT2440

Annotation: nickel-responsive 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 50 100 138 TIGR02793: nickel-responsive transcriptional regulator NikR" amino acids 2 to 130 (129 residues), 218.3 bits, see alignment E=1.7e-69 PF01402: RHH_1" amino acids 3 to 38 (36 residues), 36.5 bits, see alignment E=3.4e-13 PF08753: NikR_C" amino acids 53 to 128 (76 residues), 91.7 bits, see alignment E=2.8e-30

Best Hits

Swiss-Prot: 100% identical to NIKR_PSEPK: Putative nickel-responsive regulator (PP_3341) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: K07722, CopG family transcriptional regulator, nickel-responsive regulator (inferred from 100% identity to ppu:PP_3341)

Predicted SEED Role

"Nickel responsive regulator NikR" in subsystem Transport of Nickel and Cobalt

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

See Q88HL5 at UniProt or InterPro

Protein Sequence (138 amino acids)

>PP_3341 nickel-responsive regulator (Pseudomonas putida KT2440)
MQRITITLDEELLDVIDRRVATQGYQGRSEAIRDLLRAGMRESEALPDDAACVAVVSYLY
DHSTRELPRRLNQTLHAHHDLTRSTLHVHLDAGHCLEVSVLQGESGRIGELSRQLMVERG
VEHGQVQVIPAPGQPKVR