Protein Info for B158DRAFT_1870 in Kangiella aquimarina DSM 16071

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 1406 PF04997: RNA_pol_Rpb1_1" amino acids 15 to 343 (329 residues), 276.8 bits, see alignment E=6.4e-86 TIGR02386: DNA-directed RNA polymerase, beta' subunit" amino acids 19 to 1368 (1350 residues), 1801.6 bits, see alignment E=0 PF00623: RNA_pol_Rpb1_2" amino acids 345 to 396 (52 residues), 34.4 bits, see alignment (E = 6.9e-12) amino acids 395 to 486 (92 residues), 95 bits, see alignment 1.5e-30 PF04983: RNA_pol_Rpb1_3" amino acids 490 to 645 (156 residues), 117.3 bits, see alignment E=1.6e-37 PF05000: RNA_pol_Rpb1_4" amino acids 675 to 764 (90 residues), 74.3 bits, see alignment 1.8e-24 PF04998: RNA_pol_Rpb1_5" amino acids 767 to 1317 (551 residues), 267.7 bits, see alignment E=3e-83

Best Hits

Swiss-Prot: 74% identical to RPOC_ACTPJ: DNA-directed RNA polymerase subunit beta' (rpoC) from Actinobacillus pleuropneumoniae serotype 3 (strain JL03)

KEGG orthology group: K03046, DNA-directed RNA polymerase subunit beta' [EC: 2.7.7.6] (inferred from 74% identity to aap:NT05HA_1812)

MetaCyc: 76% identical to RNA polymerase subunit beta' (Escherichia coli K-12 substr. MG1655)
DNA-directed RNA polymerase. [EC: 2.7.7.6]

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 (1406 amino acids)

>B158DRAFT_1870 DNA-directed RNA polymerase, beta' subunit, predominant form (Kangiella aquimarina DSM 16071)
MKDLLNFIKQQNQSEEFDAIRIGLASPDQIRSWSFGEVKKPETINYRTFKPERDGLFCAK
IFGPVKDYECLCGKYKRLKHRGIICEKCGVEVTLTKVRRERMGHIDLACPVAHIWFLKSL
PSRIGMLLDMTLRDIERILYFEAFVVTEPGMTTLEAGQLLSEEGYLDALEEFGDDFEAKM
GAEAISALLDLIDLKEEAQRIREEEIPSTNSETKLKKLSKRLKLLEAFLDSGNDPQWMIM
TVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLRRLLDLNAPDIIVRNEKRML
QESVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIVVGP
TLKLHQCGLPKKMALELFKPFIYSKLELRGLATTIKAAKKMVEREEPVVWDILEEVIREH
PVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCVAYNADFDGDQMAVHVPLTIEAQLE
ARALMMSTNNILSPANGEPIIVPTQDVVLGLYYLTRDRVNAKGEGMIFSDADEVQRAYAN
GIVDLHAKVKVRLPMVDIDEEGNKTARIELAETTVGRSLLWGIVPDGISFDLVNKPMTKK
AISKLVNTCYRECGLKATVIFADQLMYTGFGYATRSGASVGIEDMSIPEAKAEIIEAAEK
EVAEIQEQFNSGLVTQGERYNKVVDIWSHTNEKVAKAMMDFIGTEEVVDKEGNTVRQPSF
NSIFMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIEMPITANFREGLDVSQYFISTHGA
RKGLADTALKTANSGYLTRRLVDVAQDMVITEHDCGTEEGVYMSPLIEGGDVVEPLSERV
LGRVVAEHVYVPGTDDILAEAGTLLDEKWVETLEQNSVDQVKVRSVITCQTRNGVCAACY
GRDLARGHIINQGEAVGVIAAQSIGEPGTQLTMRTFHIGGAASRASADNNVQIKNDGEIR
LKNAKTVERQDGKLVIVSRSSELNVIDEYGRERERYKVPYGAVLSAKEGEQAKGGDIVAN
WDPHTHPIIAELDGKIQFVDMIEGVNIERQTDELTGLSSIVITENKQRSGSKSSDVKPAI
KLIDKKGKDLYIPGTEMPAVYFLPTNAIVSLEDGAEVNIGDAIARIPQESSKTKDITGGL
PRVADLFEARKPKEPAILAEISGTVSFGKETKGKRRLVITPQDGGDTYEELIPKWRQLNV
FEGEKVEKGEVVSDGADNPHDILRLKGITELARYIVNEVQEVYRLQGVGINDKHIEVIIR
QMLRKCIVTDPGDSLFLKGDQMEVVRVLEENDKLVEAGKDPVHFERVLMGITKASLATES
FISAASFQETTRVLTEAAVNGKTDDLRGLKENVIVGRLIPAGTGLTYHAERRRKRAESMV
EDLGLSADEVEQALSDELSSINEGED