Protein Info for Psest_4132 in Pseudomonas stutzeri RCH2

Updated annotation (from data): alpha-ketoglutarate DNA-binding response regulator (mifR)
Rationale: Specific phenotype on a-ketoglutarate and 75% identical to PA5511 (mifR), which regulates a-ketoglutarate transport in P. aeruginosa (PMC4482717). The transporter in this organism is Psest_0084:0085.
Original annotation: Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains

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 50 100 150 200 250 300 350 400 447 PF00072: Response_reg" amino acids 5 to 114 (110 residues), 105.7 bits, see alignment E=3.8e-34 PF14532: Sigma54_activ_2" amino acids 145 to 315 (171 residues), 73 bits, see alignment E=7.3e-24 PF00158: Sigma54_activat" amino acids 145 to 310 (166 residues), 224.2 bits, see alignment E=2e-70 PF02954: HTH_8" amino acids 392 to 431 (40 residues), 32.1 bits, see alignment 1.9e-11

Best Hits

Swiss-Prot: 56% identical to DCTD_PSEAE: C4-dicarboxylate transport transcriptional regulatory protein DctD (dctD) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K10126, two-component system, NtrC family, C4-dicarboxylate transport response regulator DctD (inferred from 99% identity to psa:PST_0151)

Predicted SEED Role

"Nitrogen regulation protein NtrX"

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 L0GS32 at UniProt or InterPro

Protein Sequence (447 amino acids)

>Psest_4132 alpha-ketoglutarate DNA-binding response regulator (mifR) (Pseudomonas stutzeri RCH2)
MSGQVIFIDDEAAIRQAVQQWLELSGFQVRTFSRAREALTALDRDFPGVLISDVRMPDLD
GLGLLEQLVALDADLPVIMVTGHGDVPMAVQALRQGAYDFIEKPFTPERLLDSVRRAMDK
RRLVCENRQLREQFARKGRIESQLLGVSRAMDNLRRQVLELAGTDVNVLIRGETGSGKEQ
VARCLHDFSPRAGGPFVALNCAAIPETIFESELFGHESGAFTGAQGKRIGRIEHAAGGTL
FLDEIESMPLAQQVKLLRVLQEKTLERLGSNRSIEVDLRVISAAKPDLLEEVRGGRFRED
LLYRLNVAELHIPPLRERREDIPLLFEHFASQAAQRHGRAAPPVTPGELTQLLAHDWPGN
VRELINAAERHALGLSAPAPASSGGQSLAEQMEAFEAQCLHNALQQCKGNITEVMTQLQL
PRRTLNEKMQRHGLSRSDYLPAGSADS