Protein Info for TX73_016685 in Rhodopseudomonas palustris CGA009

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 50 100 150 200 250 300 339 TIGR02027: DNA-directed RNA polymerase, alpha subunit" amino acids 28 to 319 (292 residues), 383 bits, see alignment E=4.4e-119 PF01193: RNA_pol_L" amino acids 33 to 228 (196 residues), 87.4 bits, see alignment E=6.6e-29 PF01000: RNA_pol_A_bac" amino acids 63 to 178 (116 residues), 117.9 bits, see alignment E=4.5e-38 PF03118: RNA_pol_A_CTD" amino acids 255 to 310 (56 residues), 88.5 bits, see alignment E=2.9e-29

Best Hits

Swiss-Prot: 100% identical to RPOA_RHOPT: DNA-directed RNA polymerase subunit alpha (rpoA) from Rhodopseudomonas palustris (strain TIE-1)

KEGG orthology group: K03040, DNA-directed RNA polymerase subunit alpha [EC: 2.7.7.6] (inferred from 100% identity to rpt:Rpal_3642)

MetaCyc: 50% 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

Find the best match in UniProt

Protein Sequence (339 amino acids)

>TX73_016685 DNA-directed RNA polymerase subunit alpha (Rhodopseudomonas palustris CGA009)
MTIQKNWQELIRPNKLQVTPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAV
QSVHIDGVLHEFSSIAGVREDVTDIVLNIKDISLKMQGEGPKRMVVKKQGPGAVTAGDIQ
TVGDIVVLNPDLQLCTLDDGAEIRMEFTVNTGKGYVAAERNRPEDAPIGLIPVDSLYSPV
RKVSYKVENTREGQILDYDKLTMTVETNGAISPEDAVAFAARILQDQLNVFVNFEEPRKE
VTQEIIPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK
SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFEDHY