Protein Info for GFF2200 in Variovorax sp. SCN45

Annotation: sigma-54-dependent 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 50 100 150 200 250 300 350 400 474 PF00158: Sigma54_activat" amino acids 139 to 305 (167 residues), 209 bits, see alignment E=1e-65 PF14532: Sigma54_activ_2" amino acids 140 to 310 (171 residues), 56.4 bits, see alignment E=9.7e-19 PF07728: AAA_5" amino acids 162 to 283 (122 residues), 22.7 bits, see alignment E=2.2e-08 PF02954: HTH_8" amino acids 425 to 461 (37 residues), 43.8 bits, see alignment 4.1e-15

Best Hits

KEGG orthology group: None (inferred from 94% identity to vap:Vapar_4454)

Predicted SEED Role

"Sigma-54 dependent 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 (474 amino acids)

>GFF2200 sigma-54-dependent transcriptional regulator (Variovorax sp. SCN45)
MSSPANFDELDLFVWEGKADILDRIARCMASFDVEVIRADGLPPPAPERGVAMRPSVAII
SVTVIDGGGLAHATELLQGMPVIWVAAGSRERDSRTYPPEYLHVLPYDFTCAELRTMVAK
LVRQLRAREVAPQAPDVLVAHSDAMKSLLAEVGAFADCDHSVLVRGETGVGKERIAQQLH
LGHQHYSKGAFVAVNCGAIPDGLFESLFFGHTKGSFTGAVHAHRGYFEQATGGTLFLDEI
GDLPRYQQVKLLRVLEDNAVTRLGATAPIRVDFRLVAATNRNLREMVASGEFRADLFYRL
AVIELHVPSLEERGEVDKIAIFKALLSNVLGDELEALGETPHWLSDAVAETYFPGNVRQL
RNLAERVGVIARQLHSWDQNLIQRAIALTRGTPAPAISADRNGAGGGGGIGLDGGSDRKG
WNSGERNRIIAALEVNDWKRQDTAQHLGISRKVLWEKMRKYQILDGEPGIPEDA