Protein Info for BPHYT_RS17985 in Burkholderia phytofirmans PsJN

Annotation: DNA-directed RNA polymerase subunit alpha

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 50 100 150 200 250 300 325 TIGR02027: DNA-directed RNA polymerase, alpha subunit" amino acids 21 to 313 (293 residues), 354.7 bits, see alignment E=1.9e-110 PF01193: RNA_pol_L" amino acids 26 to 224 (199 residues), 83 bits, see alignment E=1.5e-27 PF01000: RNA_pol_A_bac" amino acids 56 to 174 (119 residues), 116.9 bits, see alignment E=9.5e-38 PF03118: RNA_pol_A_CTD" amino acids 247 to 305 (59 residues), 86.2 bits, see alignment E=1.5e-28

Best Hits

Swiss-Prot: 100% identical to RPOA_PARXL: DNA-directed RNA polymerase subunit alpha (rpoA) from Paraburkholderia xenovorans (strain LB400)

KEGG orthology group: K03040, DNA-directed RNA polymerase subunit alpha [EC: 2.7.7.6] (inferred from 99% identity to bge:BC1002_2871)

MetaCyc: 61% identical to RNA polymerase subunit alpha (Escherichia coli K-12 substr. MG1655)
DNA-directed RNA polymerase. [EC: 2.7.7.6]

Predicted SEED Role

"DNA-directed RNA polymerase alpha subunit (EC 2.7.7.6)" in subsystem RNA polymerase bacterial (EC 2.7.7.6)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.7.6

Use Curated BLAST to search for 2.7.7.6

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 B2T725 at UniProt or InterPro

Protein Sequence (325 amino acids)

>BPHYT_RS17985 DNA-directed RNA polymerase subunit alpha (Burkholderia phytofirmans PsJN)
MQTSLLKPKIIAVESLGESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIAG
VVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEV
INPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRVS
YAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEGTEATAEAP
SRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNEI
KEVLASRGLTLGMKLENWPPAGLDK