Protein Info for GFF5881 in Variovorax sp. SCN45

Annotation: DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)

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 1374 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 13 to 1371 (1359 residues), 1821.3 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 31 to 511 (481 residues), 79.8 bits, see alignment E=6.2e-26 PF04561: RNA_pol_Rpb2_2" amino acids 162 to 234 (73 residues), 26.8 bits, see alignment 1.2e-09 amino acids 373 to 466 (94 residues), 57.1 bits, see alignment 6.2e-19 PF04565: RNA_pol_Rpb2_3" amino acids 525 to 592 (68 residues), 104.3 bits, see alignment 9e-34 PF10385: RNA_pol_Rpb2_45" amino acids 603 to 668 (66 residues), 88.7 bits, see alignment 6.3e-29 PF00562: RNA_pol_Rpb2_6" amino acids 730 to 1296 (567 residues), 448.8 bits, see alignment E=5e-138 PF04560: RNA_pol_Rpb2_7" amino acids 1298 to 1372 (75 residues), 98.3 bits, see alignment 8.3e-32

Best Hits

KEGG orthology group: K03043, DNA-directed RNA polymerase subunit beta [EC: 2.7.7.6] (inferred from 92% identity to aaa:Acav_4447)

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)

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 (1374 amino acids)

>GFF5881 DNA-directed RNA polymerase beta subunit (EC 2.7.7.6) (Variovorax sp. SCN45)
MAQSSAYSYTERKRIRKSFGNRDSVVEIPYLLQMQKDAYTAFLQAGIPPKQRTVEGLQAA
FDAAFPIVSHNGFVEMKFLEYNLAKPAFDVRECQTRGLTFASAVRAKVQLIIYDRESSTS
QSKVVKEVKEQEVYMGEVPLMTDKGSFIINGTERVIVSQLHRSPGVFFEHDKGKTHSSGK
LLFSARVIPYRGSWLDFEFDPKDMLYFRVDRRRKMPVTILLKAIGLNPESILANFFVNDN
FRLMDSGAQMEFVSERLRGEVARFDITDKSGKVVVAKDKRVTARHTRELEQGGTTHISVP
EDFLVGRVIARNIVDADSGEILAKANDELTEALLKKLRTAGVQDVQVIYTNELDQGAYIS
QTLRIDETVDEFAARVAIYRMMRPGEPPTEDAVQALFQRLFYNPDTYDLSRVGRMKFNAK
VGRDESTGPMVLTNEDILAVVKILVDLRNGNGEVDDIDHLGNRRVRCVGELAENQYRTGL
ARIEKAVKERLGQAEQEPLMPHDLINSKPISAALKEFFGASQLSQFMDQTNPLSEITHKR
RVSALGPGGLTRERAGFEVRDVHVTHYGRVCPIETPEGPNIGLINSLALYARLNEYGFIE
TPYRRVVDSKVTNEIDYLSAIEEGKYVIAQANAALDKDGVLTGDLVSAREAGESILVGAE
RIQYMDVSPAQIVSVAASLVPFLEHDDANRALMGANMQRQAVPVLRPEKPMVGTGIERVS
AVDSGTVVTATRGGIVDYVDATRVVVRVNDAEAAAGEVGVDIYNLIKYQRSNQNTNIHQR
PIVKRGDKIAKGDVVADGASTDLGELALGQNMLIAFMPWNGYNFEDSILISERVVAEDRY
TSIHIEELVVMARDTKLGAEEITRDIPNLAEQQLNRLDESGIIYVGAEVQPGDTLVGKVT
PKGETTLTPEEKLLRAIFGEKASDVKDTSLRVDQGSQGTVIDVQVFTREGITRDKRAQQI
IDDELKRFRLDLNDQLRIVEADAFDRIEKLLTGKVANGGPNKLAKGTKLDKAYLSSVEKF
HWFDIRPAEDEVATQLESIKNSLEQTRHSFDLAFEEKRKKLTQGDELPAGVLKMVKVYLA
VKRRLQPGDKMAGRHGNKGVVSKIVPVEDMPHMADGTPCDICLNPLGVPSRMNVGQVLEV
HLGWAGKGIGQRIGDLLQQEAKVAELRKFMEQLYNGSGRPEELEQLSDTELLAMAANLQS
GATFATPVFDGASEEEIRGMLKLAYPDDIAKLKGLTETRTQAYLFDGRTGDQFERPVTVG
YMHFLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYVLQ
EMLTVKSDDVQGRTKVYESIVKGEHSIEAGMPESFNVLVKEIRSLGLDIELERS