Protein Info for TX73_016890 in Rhodopseudomonas palustris CGA009

Annotation: DNA-directed RNA polymerase subunit beta'

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 1400 PF04997: RNA_pol_Rpb1_1" amino acids 17 to 344 (328 residues), 293 bits, see alignment E=9.3e-91 TIGR02386: DNA-directed RNA polymerase, beta' subunit" amino acids 20 to 1023 (1004 residues), 1489 bits, see alignment E=0 PF00623: RNA_pol_Rpb1_2" amino acids 346 to 400 (55 residues), 36.5 bits, see alignment (E = 1.8e-12) amino acids 395 to 487 (93 residues), 95.8 bits, see alignment 1e-30 PF04983: RNA_pol_Rpb1_3" amino acids 491 to 644 (154 residues), 100.3 bits, see alignment E=3.2e-32 PF05000: RNA_pol_Rpb1_4" amino acids 673 to 759 (87 residues), 76.3 bits, see alignment 5.1e-25 PF04998: RNA_pol_Rpb1_5" amino acids 762 to 1309 (548 residues), 240.7 bits, see alignment E=6e-75

Best Hits

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 (1400 amino acids)

>TX73_016890 DNA-directed RNA polymerase subunit beta' (Rhodopseudomonas palustris CGA009)
MNQEIMNLFNPTTPAQVFDQIRISIASPEKILSWSYGEIKKPETINYRTFKPERDGLFCA
RIFGPIKDYECLCGKYKRMKYKGIICEKCSVEVTLSRVRRERMGHIELAAPVAHIWFLKS
LPSRIGQLLDMTLKDLERILYFEYYVVLEPGLTDLKERQLLSEEEYLRAQDQYGQDSFTA
MIGAEAIRELLKGLELEKIDAQLRAEMAETDSDIKHKKLAKRLKIVEAFRYSGNKPEWMI
LTVVPVIPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLMELRAPDIIIRNEKRM
LQEAVDALFDNGRRGRVITGANKRPLKSLADMLKGKQGRFRQNLLGKRVDYSGRSVIVVG
PELKLHQCGLPKKMALELFKPFIYSRLDAKGLSTTVKQAKKLVEKERPEVWDILDEVIRE
HPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCSAFNADFDGDQMAVHVPLSLEAQL
EARVLMMSTNNILHPANGQPIIVPSQDIVLGLYYLSIMREGLPGEGKVFADLAELEHALY
SKVIHLHTKIKYRWHWVNEEGENTVRLLETTAGRILLGQVLPKSPKLPFDVINKLMTKRE
ISGVIDQVYRHCGQKETVIFCDRIMALGFFNAFKAGISFGKDDMVVPGSKWKIVDSTRTL
AKDFEQQYNDGLITHGEKYNKVVDAWSKATEEIAKEMMKEISAVRKAPDGSEQQVNSIYM
MAHSGARGSPAQMRQLAGMRGLMAKPSGEIIETPIISNFKEGLSVLEYFNSTHGARKGLA
DTALKTANSGYLTRRLVDVAQDCIITQADCGTSLGIKMRAIVDAGTVVASLGSRILGRTA
GEDVRDPATNEIIVKRGDLMEERDVEAIHQAGVQEVKIRSALTCELVNGICGKCYGRDLA
RGTPVNHGEAVGVIAAQSIGEPGTQLTMRTFHIGGAAQINEQSVIESNFDGKIVIKNRAI
ARNGEGHNVAMVRNMVIAIVDPDGTERATHRIQYGARVHVDEGDMVKRGQRIAEWDPYTR
PILTEVEGEIGFEDLIEDQSISETLDESTGIAKRIVIDWRSTRGGADLRPAIVIKGKDGK
VLKLARGGDARYMLSVDAILSVDVGAQVKPGDILARISTESAKTRDITGGLPRVAELFEA
RRPKDAAIIAEIAGTIRFGRDYKNKRRLSIEPLDKNEEAREYLIPKGKHIHLQDGDVVEK
GDFIVEGNPAPHDILAIKGIEELAAYLVNEIQEVYRLQGVLINDKHIEVIVRQMLQKIEI
TDQGDTDMISGEQVDKIEFNALNAKAVEEGKKPATGNPVLLGITKASLQTRSFFSAASFQ
ETTRVLTEAAVNGKVDPLEGLKENVIVGRLIPAGTGASMAKIREVAVKRDRLILDEREKQ
AAIVPAAAPEAEPLSLPPAE