Protein Info for PP_1393 in Pseudomonas putida KT2440

Annotation: putative 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 50 100 150 200 250 291 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF00126: HTH_1" amino acids 9 to 65 (57 residues), 72.4 bits, see alignment E=2.4e-24 PF03466: LysR_substrate" amino acids 88 to 288 (201 residues), 103.2 bits, see alignment E=1.3e-33

Best Hits

KEGG orthology group: K03566, LysR family transcriptional regulator, glycine cleavage system transcriptional activator (inferred from 99% identity to ppf:Pput_4331)

Predicted SEED Role

"Glycine cleavage system transcriptional activator" in subsystem Orphan regulatory proteins

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 Q88N23 at UniProt or InterPro

Protein Sequence (291 amino acids)

>PP_1393 putative transcriptional regulator (Pseudomonas putida KT2440)
MKRLPPLPALHTFLVTAQHCNFTRAGQQLHITQGAVSRQIAALEEHLGYALFKREARGLS
LTREGLDWLPRVQQVFALIEQGVREVGEHSTTLQLKAPTCVMRWLLPRLMEWQALRPDVP
VELTTTVQHGVDLRREGFDAAVVYGDAPNHGLQVRKLFDEQLTPVCAPSLREGPVPLQQV
EDLARHMLLHPSRDEHDWRLWLQAAGMTLATHGPKQHFETLDMAMAMASQGTGVAIGDWS
LIGDDLRGGRLCMPFALKVLTGKGYYLVSQARSLPPGLLELLDWLEGQASL