Protein Info for GFF5041 in Pseudomonas sp. DMC3

Annotation: C4-dicarboxylate transport transcriptional regulatory protein DctD

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 50 100 150 200 250 300 350 400 443 PF00072: Response_reg" amino acids 5 to 113 (109 residues), 106.1 bits, see alignment E=3.5e-34 PF14532: Sigma54_activ_2" amino acids 145 to 315 (171 residues), 75.3 bits, see alignment E=1.8e-24 PF00158: Sigma54_activat" amino acids 145 to 310 (166 residues), 221.4 bits, see alignment E=1.9e-69 PF02954: HTH_8" amino acids 393 to 431 (39 residues), 26.7 bits, see alignment 1.1e-09

Best Hits

Swiss-Prot: 52% identical to DCTD_RHILE: C4-dicarboxylate transport transcriptional regulatory protein DctD (dctD) from Rhizobium leguminosarum

KEGG orthology group: K10126, two-component system, NtrC family, C4-dicarboxylate transport response regulator DctD (inferred from 96% identity to pfo:Pfl01_4458)

Predicted SEED Role

"Nitrogen regulation protein NR(I)" in subsystem Ammonia assimilation

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

Find the best match in UniProt

Protein Sequence (443 amino acids)

>GFF5041 C4-dicarboxylate transport transcriptional regulatory protein DctD (Pseudomonas sp. DMC3)
MLNSVMVVDDESSIRDAVEQWLSLSGFRVQLFSRAEECLAALPEHFAGVILSDVRMPGMD
GLQLLAEVQKRDSDLPVILLTGHGDVPMAVEAMRDGAYDFLEKPFSPETLLGSLRRALDK
RRLVLENRALHELADNRARLDATLLGVSRGLQTLRRQVLDLATLPVNVLIRGETGSGKEL
VARCLHDFGPRAGKPFVALNCAAIPEQLFEAELFGHESGAFTGASGKRIGKLEYADGGTL
FLDEIESMPLAQQVKLLRVLQEQKLERLGSNQSIRVDLRIVAATKPDLLDEARAGRFRED
LAYRLNVAELRLPPLRDRREDIPLLFETFAQNAAQRLGRTFPPLTGAQLSHLLSHDWPGN
VRELANVAERQVLGLDEPVAGIDPGQSLAAQQEAFEAQCLRAALTRHKGDVKAVLEELQL
PRRTFNEKMQRHGLSREIFVQGS