Protein Info for Echvi_0261 in Echinicola vietnamensis KMM 6221, DSM 17526

Annotation: DNA-directed RNA polymerase, beta' subunit, predominant form

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

1 100 200 300 400 500 600 700 800 900 1000 1100 1200 1300 1437 PF04997: RNA_pol_Rpb1_1" amino acids 11 to 356 (346 residues), 259.6 bits, see alignment E=1.8e-80 TIGR02386: DNA-directed RNA polymerase, beta' subunit" amino acids 16 to 1122 (1107 residues), 1430.6 bits, see alignment E=0 PF00623: RNA_pol_Rpb1_2" amino acids 358 to 412 (55 residues), 39.3 bits, see alignment (E = 3.4e-13) amino acids 422 to 499 (78 residues), 94.2 bits, see alignment 4.3e-30 PF04983: RNA_pol_Rpb1_3" amino acids 503 to 657 (155 residues), 88.6 bits, see alignment E=1.7e-28 PF05000: RNA_pol_Rpb1_4" amino acids 686 to 772 (87 residues), 67.4 bits, see alignment 3.9e-22 PF04998: RNA_pol_Rpb1_5" amino acids 775 to 1273 (499 residues), 238 bits, see alignment E=5.3e-74

Best Hits

KEGG orthology group: K03046, DNA-directed RNA polymerase subunit beta' [EC: 2.7.7.6] (inferred from 71% identity to aas:Aasi_1395)

Predicted SEED Role

"DNA-directed RNA polymerase beta' 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)

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

See L0FUY6 at UniProt or InterPro

Protein Sequence (1437 amino acids)

>Echvi_0261 DNA-directed RNA polymerase, beta' subunit, predominant form (Echinicola vietnamensis KMM 6221, DSM 17526)
MAFRKNKKLNNDFSRVTISLASPESILDSSHGEVTQPETINYRTYKPEMGGLFCERIFGP
VKDWECHCGKYKRIRYKGIICDRCGVEVTEKKVRRERMGHIELVVPVAHIWYFKSLPNKI
GYLLGLPTKKLDQIVYYERYAVINPGIKAEDGLQYLDFLTEDEYLDIMDKLPKENQMLDD
DDPNKFIAKMGAEAIEMLLSRLDLDDLSYSLRHQAATDTSQQRKAEALKRLKVVEAFRDA
RTRIENRPEWMVVRMVPVIPPELRPLVPLDGGRFATSDLNDLYRRVIIRNNRLKRLIDIK
APEVILRNEKRMLQEAVDSLFDNSRKVNAVRSDGNRALKSLSDMLKGKQGRFRQNLLGKR
VDYSGRSVIVVGPELKLHECGLPKNMAAELFKPFIIRKLIERGIVKTVKSAKKIVDRKDP
VVWDILENVLKGHPVLLNRAPTLHRLGIQAFQPKLIEGKAIQLHPLVCTAFNADFDGDQM
AVHVPLGHEAILEASTLMLSSHNILNPANGAPITVPSQDMVLGLYYVTKGRRSTEEEPVP
GEGMTFYGEEDVIIALNEKVISQHAYIKCKVKVRDENGELVDKIVETVAGRLIFNQFVPE
EVGYVNELLTKKKLQQIIAEVVKICGIARSAQFLDDIKHLGFQMAYAGGLSMGLNDVIIP
SDKDPLITKAKDEVDQVWNNYLMGLITDNERYNQVIDIWTRTNSNLTNILMKQMEEDKQG
FNAIYMMMHSGARGSREQIRQLGGMRGLMAKPQKNLQGSVGEIIENPILSNFKEGLDVLE
YFISTHGARKGLADTALKTADAGYLTRRLVDVAQDVIVSEEDCGTLRGLVVQALKDNDEI
VEPLSERIVGRVSVHDVIDPITDEVIIQSGEEITDELARKVDESAVEEVEIRSVLTCESR
RGVCTKCYGRNLTTGSVVQNGESVGVIAAQSIGEPGTQLTLRTFHVGGTASNISVEASIN
AKFEGVVEFEEEFRFINTTNKDGDPVAVVMGRSGEIKINDAKSGKTLASNHVPYGAILNV
KDGQKIGKGDSLCTWDPYNAVILSEFDGEVSFESIIEGVTFKEVADDQTGYKEKVIIDTK
DKTKNPAVVVNYGDETKSYNIPVGAHLAVEEGDKVKAGQILVKIPRSVGKTRDITGGLPR
VTELFEARNPSNPAVVSEIDGVVTYGGIKRGNREIFIESKDGVKKRYMVSLSKHILVQEN
DFIRAGEPLSDGAITPNDILSIKGPTAVQEYLVNEIQEVYRLQGVKINDKHIEVIVSQMM
QKVEILDAGDTGFLQGQIVDKWAFREENDNILDKKVVMDAGDSSTLKAGMIITSRRLRDE
NSSLKRKDLKLVQVRDAETAVSKPTLQGITAASLGTESFISAASFQETTKVLSEAAIRGK
RDELLGLKENVIVGHLIPAGTGQRDFQHIIVGSKEEYEKLSSTERERESRKAKETVK