Protein Info for b1013 in Escherichia coli BW25113

Name: ycdC
Annotation: predicted DNA-binding transcriptional regulator (NCBI)

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 50 100 150 212 TIGR03613: pyrimidine utilization regulatory protein R" amino acids 11 to 212 (202 residues), 385.3 bits, see alignment E=3.3e-120 PF00440: TetR_N" amino acids 23 to 69 (47 residues), 54.1 bits, see alignment 1.1e-18 PF08362: TetR_C_3" amino acids 70 to 212 (143 residues), 198.4 bits, see alignment E=5.4e-63

Best Hits

Swiss-Prot: 100% identical to RUTR_ECOL6: HTH-type transcriptional regulator RutR (rutR) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K09017, TetR/AcrR family transcriptional regulator (inferred from 100% identity to eco:b1013)

Predicted SEED Role

"Transcriptional regulator RutR of pyrimidine catabolism (TetR family)" in subsystem Pyrimidine utilization

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 P0ACU2 at UniProt or InterPro

Protein Sequence (212 amino acids)

>b1013 predicted DNA-binding transcriptional regulator (NCBI) (Escherichia coli BW25113)
MTQGAVKTTGKRSRAVSAKKKAILSAALDTFSQFGFHGTRLEQIAELAGVSKTNLLYYFP
SKEALYIAVLRQILDIWLAPLKAFREDFAPLAAIKEYIRLKLEVSRDYPQASRLFCMEML
AGAPLLMDELTGDLKALIDEKSALIAGWVKSGKLAPIDPQHLIFMIWASTQHYADFAPQV
EAVTGATLRDEVFFNQTVENVQRIIIEGIRPR