Protein Info for HMPREF1058_RS09215 in Phocaeicola vulgatus CL09T03C04

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 50 100 150 200 250 300 330 TIGR02027: DNA-directed RNA polymerase, alpha subunit" amino acids 22 to 320 (299 residues), 380 bits, see alignment E=3.8e-118 PF01193: RNA_pol_L" amino acids 27 to 225 (199 residues), 88.8 bits, see alignment E=2.4e-29 PF01000: RNA_pol_A_bac" amino acids 57 to 175 (119 residues), 103.8 bits, see alignment E=1.1e-33 PF03118: RNA_pol_A_CTD" amino acids 251 to 312 (62 residues), 76.4 bits, see alignment E=1.7e-25

Best Hits

Swiss-Prot: 100% identical to RPOA_BACV8: DNA-directed RNA polymerase subunit alpha (rpoA) from Bacteroides vulgatus (strain ATCC 8482 / DSM 1447 / JCM 5826 / NBRC 14291 / NCTC 11154)

KEGG orthology group: K03040, DNA-directed RNA polymerase subunit alpha [EC: 2.7.7.6] (inferred from 100% identity to bvu:BVU_0780)

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 I8ZU66 at UniProt or InterPro

Protein Sequence (330 amino acids)

>HMPREF1058_RS09215 DNA-directed RNA polymerase subunit alpha (Phocaeicola vulgatus CL09T03C04)
MAILAFQKPDKVLMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAINTIKIE
GVEHEFASVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSSEFKAGDISKYLT
GFEVLNPELVICHLDSKATMQMDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNV
KYQVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETSDV
DGNEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFG
KKSLTELDDLLEGLNLSFGTDISKYKLDKE