Protein Info for CCNA_00536 in Caulobacter crescentus NA1000

Annotation: DNA-directed RNA polymerase beta chain

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 1356 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 8 to 1353 (1346 residues), 2022.6 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 27 to 505 (479 residues), 85.4 bits, see alignment E=1.2e-27 PF04561: RNA_pol_Rpb2_2" amino acids 158 to 228 (71 residues), 24.8 bits, see alignment 4.9e-09 amino acids 354 to 462 (109 residues), 62.7 bits, see alignment E=1.1e-20 PF04565: RNA_pol_Rpb2_3" amino acids 521 to 589 (69 residues), 107.5 bits, see alignment 9.1e-35 PF10385: RNA_pol_Rpb2_45" amino acids 599 to 663 (65 residues), 73.4 bits, see alignment 3.8e-24 PF00562: RNA_pol_Rpb2_6" amino acids 724 to 1278 (555 residues), 457.1 bits, see alignment E=1.6e-140 PF04560: RNA_pol_Rpb2_7" amino acids 1280 to 1354 (75 residues), 97.5 bits, see alignment 1.5e-31

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)

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 B8GZW7 at UniProt or InterPro

Protein Sequence (1356 amino acids)

>CCNA_00536 DNA-directed RNA polymerase beta chain (Caulobacter crescentus NA1000)
MAQSFTGKKRIRKSFGRIPEAVQMPNLIEVQRSSYEQFLQRETRPGLRRDEGVEAVFKSV
FPIKDFNERAVLEYVSYEFEEPKYDVEECIQRDMTFAAPLKVKLRLIVFETEEETGARSV
KDIKEQDVYMGDIPLMTDKGTFIVNGTERVIVSQMHRSPGVFFDHDKGKTHASGKLLFAA
RVIPYRGSWLDFEFDAKDIVYVRIDRRRKLPATTFLYALGMDGEEILTTFYDVVPFEKRS
GGWATPYKPERWRGVKPEFPLVDADTGEEVAPAGTKITARQAKKFADGGLKTLLLAPEAL
TGRYLARDAVNMATGEIYAEAGDELDVTSIQALADQGFSTIDVLDIDHVTVGAYMRNTLR
VDKNAIREDALFDIYRVMRPGEPPTVEAAEAMFKSLFFDAERYDLSSVGRVKMNMRLEQD
VSDEVRILRKEDVLAVLKVLVGLRDGRGEIDDIDNLGNRRVRSVGELLENQYRVGLLRME
RAIKERMSSVDIDTVMPHDLINAKPAAAAVREFFGSSQLSQFMDQTNPLSEITHKRRLSA
LGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATHARVNKYGFIESPYR
RVKDGKPQDEVVYMSAMEESKHVIAQSNIKVAEGEIVEDLVPGRINGEPTLLQKETVDLM
DVSPRQVVSVAAALIPFLENDDANRALMGSNMQRQAVPLVQSDAPLVGTGMEAVVARDSG
AVVIAKRTGVVEQIDGTRIVIRATEETDPARSGVDIYRMSKFQRSNQSTCINQRPLVKVG
DRIVAGDIIADGPSTELGELALGRNALVAFMPWNGYNFEDSILISERIVRDDVFTSIHIE
EFEVMARDTKLGPEEITRDIPNVGEEALRNLDEAGIVAIGAEVQPGDILVGKVTPKGESP
MTPEEKLLRAIFGEKASDVRDTSLRLPPGVAGTIVDVRVFNRHGVDKDERALAIERAEID
RLGKDRDDEFAILNRNISGRLKELLIGKVALSGPKGLSRGEITAEGLAQVASGLWWQIAL
EDEKAMGELESLRRLFDENRKRLDRRFEDKVDKLQRGDELPPGVMKMVKVFVAVKRKLQP
GDKMAGRHGNKGVISRILPIEDMPFLADGTHVDVVLNPLGVPSRMNVGQIFETHLGWACA
NLGKQITNLLEDWQQGGQKQALVERLTEIYGPDEELPDTEEGLVELARNLGKGVPIATPV
FDGARMDDIEGHLEMAGVNKSGQSILFDGLTGEQFKRPVTVGYIYMLKLHHLVDDKIHAR
SIGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVAGRTKVYE
SIVRGDDTFEAGIPESFNVLVKEMRSLGLNVELENS