Protein Info for Dsui_0365 in Dechlorosoma suillum PS

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 1402 PF04997: RNA_pol_Rpb1_1" amino acids 15 to 342 (328 residues), 283.9 bits, see alignment E=4.6e-88 TIGR02386: DNA-directed RNA polymerase, beta' subunit" amino acids 20 to 1367 (1348 residues), 1808.1 bits, see alignment E=0 PF00623: RNA_pol_Rpb1_2" amino acids 344 to 398 (55 residues), 35.1 bits, see alignment (E = 4e-12) amino acids 394 to 485 (92 residues), 96.4 bits, see alignment 6e-31 PF04983: RNA_pol_Rpb1_3" amino acids 489 to 644 (156 residues), 95.6 bits, see alignment E=7.6e-31 PF05000: RNA_pol_Rpb1_4" amino acids 676 to 764 (89 residues), 74.7 bits, see alignment 1.3e-24 PF04998: RNA_pol_Rpb1_5" amino acids 766 to 1317 (552 residues), 268.3 bits, see alignment E=1.9e-83

Best Hits

Swiss-Prot: 77% identical to RPOC_ACIAC: DNA-directed RNA polymerase subunit beta' (rpoC) from Acidovorax citrulli (strain AAC00-1)

KEGG orthology group: K03046, DNA-directed RNA polymerase subunit beta' [EC: 2.7.7.6] (inferred from 77% identity to aaa:Acav_4446)

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)

Compare to protein 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 G8QNY4 at UniProt or InterPro

Protein Sequence (1402 amino acids)

>Dsui_0365 DNA-directed RNA polymerase, beta'' subunit, predominant form (Dechlorosoma suillum PS)
MKALLDLFKQVTQEEEFDAITISLASPDKIRSWSYGEVKKPETINYRTFKPERDGLFCAK
IFGPIKDYECLCGKYKRLKHRGVICEKCGVEVTLAKVRRERMGHIELASPTAHIWFLKSL
PSRLGMVLDMTLRDIERVLYFEAYVVIEPGMTSLNRGQLLTEDDYLAKVEEYGDDFIALM
GAEAVRELLRTLDLDHEVERLRSELETTGSEAKNKKIAKRLKILEGFQKSGIKPDWMILE
VLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLELKAPEIIVRNEKRMLQ
ESVDSLLDNGRRGKAMTGANKRPLKSLADMIKGKGGRFRQNLLGKRVDYSGRSVIVVGPQ
LKLHQCGLPKLMALELFKPFIFHKLELMGLATTIKQAKKMVESQEPVVWDILEDVIREHP
VMLNRAPTLHRLGIQAFEPTLIEGKAIQLHPLVCAAFNADFDGDQMAVHVPLSLEAQMEA
RTLMLASNNVLSPANGEPIIVPSQDIVLGLYYATRDRINAKGEGMNFADVSEVLRAVNSG
LADLHAKVSVRLKEYVRGESGEWVEKITRYNTTCGRAILSEILPKGLPFSVIDKALKKKE
ISKLINTSFRRCGLKETVVFADKLMQNGYALATRAGISFCSDDMRVPTEKHTIIAEAEKE
VKEIETQYTNGLVTFGERYNKVVDIWGRTGDQVAKVMMEQLGHEEVVDRHGKTVKQESFN
SIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITTNFREGLNVLQYFISTHGAR
KGLADTALKTANSGYLTRRLVDVTQDLVVTEDDCGTQNGVTMKALIEGGEVIEPLRDRIL
GRVVVADVVNPESEETVIEAGTLVDEDLCDLIDKLGIDEVKVRTPLTCDTRYGLCAKCYG
RDLGRGSLVNVGEAVGVIAAQSIGEPGTQLTMRTFHVGGAASRAAVADRVDTKSNGVVRF
TATMRYVTNVKGEKIVFTRSGEVLVTDDNGRERERHKVPYGAILTADDGQVVKAGAVLAT
WDPHTRPMITEYAGTIKFENVEEGSTVAKQIDDVTGLSTLVVIDPKRGGKAQAKGLRPQV
KLLDENGQEVKMHGTEHAVTITFQVGSIITVADGQQVGVGDVLAKIPQESAKTRDITGGL
PRVAELFEARTPKDVGMLAEYTGTVSFGKDTKGKQRLVITDLDGVAHEYLILKDKHVMVH
DGQVVNKGEVIVDGEPDPHEILKLKGVEALARYITDEVQDVYRLQGVKINDKHIEVIVRQ
MLRRVTITEPGDTRFIKSEQVERADVLDENDRVVAEGKLPASYDYMLLGITKASLSTDSF
ISAASFQETTRVLTEAAIMGKRDELRGLKENVIVGRLIPAGTGLAYHNSRRQQAAGNDQG
LDRVLGGEDVAVEEVPAGNDAV