Protein Info for GFF2487 in Sphingobium sp. HT1-2

Annotation: CarD-like 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 50 100 150 175 PF02559: CarD_TRCF_RID" amino acids 8 to 66 (59 residues), 60.7 bits, see alignment E=1.2e-20 PF21095: CarD_C" amino acids 76 to 158 (83 residues), 82.9 bits, see alignment E=1.3e-27

Best Hits

Swiss-Prot: 36% identical to CARD_MYCS2: RNA polymerase-binding transcription factor CarD (carD) from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

KEGG orthology group: K07736, CarD family transcriptional regulator (inferred from 97% identity to sch:Sphch_1459)

Predicted SEED Role

"CarD-like transcriptional regulator"

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 (175 amino acids)

>GFF2487 CarD-like transcriptional regulator (Sphingobium sp. HT1-2)
MAAKALSFDVGDYVVYPKHGVGRVIELQKEQIAGMELELYVLRFEKERMTLRVPTNKAEG
VGMRKLSSNKTLEESMETLKGKPKVKRTMWSRRAQEYEAKINSGDLVSIAEVTRDLFRAD
DQPEQSYSERQIFEAASSRLARELAAMEETDEPTALQKILRILNEAAPKYAKVEG