Protein Info for mRNA_6082 in Rhodosporidium toruloides IFO0880

Name: 14450
Annotation: K03010 RPB2, POLR2B DNA-directed RNA polymerase II subunit RPB2

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 1254 PF04563: RNA_pol_Rpb2_1" amino acids 64 to 480 (417 residues), 225.8 bits, see alignment E=1.4e-70 PF04561: RNA_pol_Rpb2_2" amino acids 243 to 432 (190 residues), 151.9 bits, see alignment E=5.9e-48 PF04565: RNA_pol_Rpb2_3" amino acids 506 to 570 (65 residues), 89.2 bits, see alignment 5.5e-29 PF04566: RNA_pol_Rpb2_4" amino acids 604 to 665 (62 residues), 88.9 bits, see alignment 7.4e-29 PF04567: RNA_pol_Rpb2_5" amino acids 696 to 767 (72 residues), 79.6 bits, see alignment 7.1e-26 PF00562: RNA_pol_Rpb2_6" amino acids 774 to 1146 (373 residues), 424.1 bits, see alignment E=2.1e-130 PF04560: RNA_pol_Rpb2_7" amino acids 1148 to 1237 (90 residues), 106.9 bits, see alignment 2e-34

Best Hits

Predicted SEED Role

"DNA-directed RNA polymerase II second largest subunit (EC 2.7.7.6)" in subsystem RNA polymerase II (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 (1254 amino acids)

>mRNA_6082 K03010 RPB2, POLR2B DNA-directed RNA polymerase II subunit RPB2 (Rhodosporidium toruloides IFO0880)
MSYSYDYGSQSQYGGAYGDSGTTGMGMYDDDGYGAGGGDDYLDETITQEDCWTVIAAYFA
DKTLVSQQIDSFNEFVNTTMQELVDESGSLILDQNMQHSGKAGDATKRYELKFEQIYLSK
PTQTEADGTVAPMFPNEARLRNLTYSAPLYIDVKKRVLVQESDEPDPETGELVWTEEKDD
DEAGEEEKIYIGKVPIMLQSDFCILENLEEKDKLELNECPYDKGGYFVINGSEKVLIAQE
RMATNRVYVFAKSQPSPVSYLAEIRSAVEKGGKTISSLQIKMMRRTERQSGQTIKSTIPY
IRADIPIVVVFRALDLIPDRDILDRICYDRNDTELFEMMKPCLEDAFPIQSRDVALDFIG
RRGTVPALSRDRRINYAQEILQKEMLPHVSMAPGQNTKKAFFFGYMVHRLLLAALERREL
DDRDHFGAKRLDLAGPLLAALFRMLFRKLTKDVYRHLQKCVETGKPFNINSAIKSTTITN
GLKYSLATGNWGDQKKAMSAKAGVSQVLNRYTFASTLSHLRRCNTPIGRDGKIAKPRQLH
NTHWGMVCPAETPEGQACGLVKNLALMAYISVGSPSAPIVEFLEEWGMENLEEYSSDMSK
ATKVFVNGVWQGVHRDPAQLVSTIKSLRRRGDIQYEVSIVRDVRERELRIFTDAGRVCRP
LFVVEDQRLALRREHIEMLSIEEPQDPEVDPPKLKWPQLIEQGIVEYLDAEEEETVMICM
TPEDLDMSRQFRDTGMVEATTTGDASATVRTTSGAKTQTWTHCEIHPSMILGICASIIPF
PDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRSMEYLHFRELP
AGQNAIVAILCYSGYNQEDSVIMNQSSIDRGLFRSLYYRSYMDQEKKSGQIQLEEFEKPT
RDTTLRLKHGTYEKLDQDGLVSVGERVAGEDIIIGKTAPIPTDSEELGQRLKTHTKRDVS
TPLKSTENGLVDQVLLTTNSEGLKFVKIRIRSTRVPEIGDKFASRHGQKGTIGITYRHED
MPFSAEGITPDLIINPHAIPSRMTIGHLVECLLSKVSTITGNEGDATPFSEVTVEAISEL
LRKYGYHSRGLEVMYNGHTGRKLQAQVYLGPTYYQRLKHMVGDKIHARARGPVQILTRQP
VEGRSRDGGLRFGEMERDCMLAHGVAGFLKERMFEASDGYRIHVCEICGLTAIANLKKQS
FECRACKNRTAIAQVHIPYAAKLLFQELQSMNVACRFGFEDKASQNAARQETVV