Protein Info for GFF3521 in Variovorax sp. SCN45

Annotation: DNA-binding response regulator KdpE

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 50 100 150 200 234 PF00072: Response_reg" amino acids 7 to 115 (109 residues), 89.7 bits, see alignment E=1.4e-29 PF00486: Trans_reg_C" amino acids 156 to 232 (77 residues), 80.7 bits, see alignment E=6.5e-27

Best Hits

Swiss-Prot: 39% identical to MTRA_MYCS2: DNA-binding response regulator MtrA (mtrA) from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

KEGG orthology group: K07667, two-component system, OmpR family, KDP operon response regulator KdpE (inferred from 97% identity to vpe:Varpa_5689)

Predicted SEED Role

"sensor histidine kinase"

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 (234 amino acids)

>GFF3521 DNA-binding response regulator KdpE (Variovorax sp. SCN45)
MPAPTAIVIEDEPQIRRFVRGALEAEGWLVHEAGTLRDGLAAAGTRQPDLLVLDLGLPDG
DGVSLIRDVRGWSAVPIIVLSARTDEADKIAALDAGADDYLTKPFGTGELLARVRANLRR
PRAAGGGGGNDEPAEALFRFGEIEFDRAARLVRRAGAEVHLTPTEYRLLSVLVANAGRVL
TQRQLLREVWGPSYTDQSHYLRIYMGHLRQKLEADPAQPRHLLTETAVGYRLVV