Protein Info for mRNA_4159 in Rhodosporidium toruloides IFO0880

Name: 12527
Annotation: K03002 RPA2, POLR1B DNA-directed RNA polymerase I subunit RPA2

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 1235 PF04563: RNA_pol_Rpb2_1" amino acids 59 to 448 (390 residues), 116.9 bits, see alignment E=2.7e-37 PF04561: RNA_pol_Rpb2_2" amino acids 228 to 416 (189 residues), 76.8 bits, see alignment E=5.2e-25 PF04565: RNA_pol_Rpb2_3" amino acids 503 to 565 (63 residues), 90.1 bits, see alignment 2.6e-29 PF06883: RNA_pol_Rpa2_4" amino acids 608 to 665 (58 residues), 85.2 bits, see alignment 7.2e-28 PF00562: RNA_pol_Rpb2_6" amino acids 714 to 1082 (369 residues), 376.2 bits, see alignment E=6.4e-116 PF04560: RNA_pol_Rpb2_7" amino acids 1084 to 1168 (85 residues), 54.6 bits, see alignment 3.5e-18

Best Hits

KEGG orthology group: K03002, DNA-directed RNA polymerase I subunit RPA2 [EC: 2.7.7.6] (inferred from 60% identity to ani:AN3933.2)

Predicted SEED Role

"DNA-directed RNA polymerase I second largest subunit (EC 2.7.7.6)" in subsystem RNA polymerase I (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 (1235 amino acids)

>mRNA_4159 K03002 RPA2, POLR1B DNA-directed RNA polymerase I subunit RPA2 (Rhodosporidium toruloides IFO0880)
MPGVVTAPFPAPIAGPSKSAAAYKQRTGFAPTSFRTLDRERAFSHPSTEGSKYPAPQELV
APHIHSFDALFEGAPQPDGTVSQSEGLLSMGVKDLLPKVVFDHKGEEGSLGNRLEMRVLE
VTVGRPMGVMKGAQSRERRIYPTEARERLATYAGRMTAKIAWSVNGGPTQIESRELGNLP
IMVKSARCHLRNLPPAELVAHHEEAEEMGGYFIINGNERLIRFLIVPRRNHVTSIIRPSF
ANRGVAYTQYGVAVRSVRPDQTSQTNTLHYLSNGGATLRFSWRKAEYMVPVVMILKALTG
ATDKEIFLGILQKDFENTFVTDRVELLLRGFKTYNLYTKAQCLEFLGDKFRVVLGCPEDW
TDERVGQHLIDTIVLPHLKDPRDKLRMLFFMLRKLYALVGGECCADNPDSPQHQEILMPG
FLYGMIVKEKLDELLNGIRTQMLQDIRRQIPGTDLTDPKYIQKTISRVNADIGGKLAYFL
ATGNLVSPSGLDLQQASGYTIVGEKLNFTRYIAHFRSVHRGAFFAELKTTTVRKLLPEAW
GFLCPVHTPDGSPCGLLNHFAHKCRLVHQHLNVDHVPALLSSLGMLQPLDPSIDSRKHVV
VQLDGRIVGWATPVLAKQLADTLRLWKTEGQHDVPLDLEIGLVPLSKGGQYPGLYLFASR
ARMMRDVKYLANGKTDSVGPFEQVYLDIACMQEEVEQGLTTHIEFSPTHVLSLLANLTPF
SDYNQSPRNMYQCQMSKQTMGTPSTALQRRTDNKLYRLQTGQTPIVRPDLHNTYGMDGYP
NGTNAIVAVISYTGYDMEDAMILNKSAHERGFAHGSIYKSHIVDLKTVRGDKGSGGHPEV
HFGVGPDIRPDNEKFQTVDKDGLPLVGMRVKTGDVIAAYYDRTAGKTRVEKYKGDEVAYI
DEVRLIGDDTSDATAKKLHIKLRVPRSPVIGDKFSSRHGQKGVCSQKYPAVDMPFTESGM
QPDVIINPHAFPSRMTIGMFVESIAAKAGALHGLAQDGTPFNFSEDDTPLEYFGDQLRKA
GYNYYGNEPMYSGITGEEFHADIYIGVVYYQRLRHMVGDKWQVRTTGPLDQVTRQPVKGR
KRGGGIRFGEMERDALLAHGTSFLLQDRLMNCSDYSTAWVCRECGSMISLGYDQVTLAQS
LHAGAGDRPGLELAAGPGGEYCRVCRDKAIEEYEAEQEKAKAAKKQKKVEETGMTFERNV
KVKGGDLDVVAVPFVFRLLVAELAAMGIQVAVGVQ