Protein Info for Ga0059261_0783 in Sphingomonas koreensis DSMZ 15582

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 1426 PF04997: RNA_pol_Rpb1_1" amino acids 15 to 343 (329 residues), 288 bits, see alignment E=2.5e-89 TIGR02386: DNA-directed RNA polymerase, beta' subunit" amino acids 19 to 1351 (1333 residues), 1792.9 bits, see alignment E=0 PF00623: RNA_pol_Rpb1_2" amino acids 345 to 486 (142 residues), 122.5 bits, see alignment E=5.5e-39 PF04983: RNA_pol_Rpb1_3" amino acids 490 to 643 (154 residues), 97.6 bits, see alignment E=1.8e-31 PF05000: RNA_pol_Rpb1_4" amino acids 672 to 759 (88 residues), 72.3 bits, see alignment 7.4e-24 PF04998: RNA_pol_Rpb1_5" amino acids 762 to 1301 (540 residues), 249.3 bits, see alignment E=1.2e-77

Best Hits

Swiss-Prot: 70% identical to RPOC_ACICJ: DNA-directed RNA polymerase subunit beta' (rpoC) from Acidiphilium cryptum (strain JF-5)

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

See A0A1L6JAB0 at UniProt or InterPro

Protein Sequence (1426 amino acids)

>Ga0059261_0783 DNA-directed RNA polymerase, beta' subunit, predominant form (Sphingomonas koreensis DSMZ 15582)
MNELTNFANPVAKPETFDQIQIGIASPDRIRSWSFGEIKKPETINYRTFKPERDGLFCAR
IFGPIKDYECLCGKYKRMKYKGIVCEKCGVEVTVSKVRRERMGHIELAAPVAHIWFLKSL
PSRIGLLLDMQLKQLERVLYFESYIVTEPGLTPLEKFQLLTEDELLDAQDEYGEDAFSAG
IGAEAVKIMLMDLDLEGERKELLEELATTKSELKPKKIIKRLKVVESFIDSGNRPEWMIL
DVVPVIPPELRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLMELRAPDIIVRNEKRML
QEAVDALFDNGRRGRTITGANKRPLKSLSDMLKGKQGRFRQNLLGKRVDYSGRSVIVTGP
ELKLHQCGLPKKMALELFKPFIYARLDAKGLSMTLKQAKKWVEKERKEVWDILDEVIREH
PVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCSAFNADFDGDQMAVHVPLSLEAQLE
ARVLMMSTNNILSPANGKPIIVPSQDMVLGLYYISMEKENEPGQGMILGDMAEVHQALFA
GAVTLHTKITSRVPQTDEDGNTYMKRFETTPGRMLLGECLPKSHKVPFDVVNRLLTKKDV
GDVIDEVYRHTGQKETVLFADAIMALGFRHAFKAGISFGKDDMIIPDSKDALVDETRALV
KDYEQQYQDGLITQQEKYNKVIDAWSRCGDQVAAAMMDEIKAVKTDPETGREKPANAIYM
MAHSGARGSAAQIKQLAGMRGLMAKPSGEIIETPIISNFKEGLTVLEYFNSTHGARKGLA
DTALKTANSGYLTRRLVDVSQDCVVMEEDCGTERALEMKAIVQGGSTIASLGERILGRTT
AEDVVDPKTGEVAIATGTLLDEAMIAQIEALGIQGMKIRSPLVCEAKIGVCAKCYGRDLA
RGTPVNIGEAVGVIAAQSIGEPGTQLTMRTFHIGGAAQLNEQSNLEAPVDGKVEFRDVRI
IVDQRGRRVVTSRSAELAILDMDGRELAVHRIPYGAYVMFDDGHVVAKGDRMAEWDPFTM
PVITETGGTVKYQDLIDGKTLTEQVDEATGIAQRVVIENRGAAAKKEDLRPRLTLTGDSE
GEAARYMLAPGAVISVEDGATVQGGDVLARVSRESAKTRDITGGLPRVAELFEARKPKEN
AIIAKVSGRVVFGKDYKAKRKIGIQPEDGGEVVEYLVPKSKVIDVQEGDYVKRGDNLIGG
SPDPHDILEVLGIEPLAEYLVSEIQEVYRLQGVKINDKHIEVIVRQMLQKVEITDAGDTT
LLPGEQVDRDEMDETNAKLEPGQAPAQGKPILLGITKASLQTRSFISAASFQETTRVLTE
AAVQGKQDTLIGLKENVIVGRLIPAGTGAGMNRMRIAATSRDAALRAQQRRLQEVLIAPN
SAAEERAAELAQDPIEAMATSDALEKVEVSGDGSDAAAGDYLNESE