Protein Info for DVU2928 in Desulfovibrio vulgaris Hildenborough JW710

Name: rpoB
Annotation: DNA-directed RNA polymerase, beta subunit (TIGR)

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 1372 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 5 to 1353 (1349 residues), 1786.9 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 20 to 498 (479 residues), 79.6 bits, see alignment E=7.1e-26 PF04561: RNA_pol_Rpb2_2" amino acids 149 to 256 (108 residues), 43 bits, see alignment E=1.3e-14 amino acids 357 to 454 (98 residues), 52.7 bits, see alignment 1.4e-17 PF04565: RNA_pol_Rpb2_3" amino acids 513 to 581 (69 residues), 100 bits, see alignment 2e-32 PF10385: RNA_pol_Rpb2_45" amino acids 591 to 656 (66 residues), 70 bits, see alignment 4.4e-23 PF00562: RNA_pol_Rpb2_6" amino acids 718 to 1279 (562 residues), 451.5 bits, see alignment E=7.6e-139 PF04560: RNA_pol_Rpb2_7" amino acids 1281 to 1356 (76 residues), 91 bits, see alignment 1.6e-29

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

See Q727C7 at UniProt or InterPro

Protein Sequence (1372 amino acids)

>DVU2928 DNA-directed RNA polymerase, beta subunit (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MGQLTKKFGKIDVSLPIPHLLNLQVDSYVKFLQEGATERRHDEGLEGVFRSVFPIEDFNR
TASLEFVSYEVGEPKYDQPECISKGLTYEAPIRIKVRLVVYDVDEDSGNRTIRDIKEQEI
YFGTLPLMTEKGTFIINGTERVIVNQLQRSPGIIFEHDSGKTHSSRKVLYSCRIIPMRGS
WLDFDFDHKDILYVRIDRRRKMPATILFKAMGMSKTDILDYFYKKEFYRLDPMGRLMWEV
QKDMYRKDSAFVDIEDGKGGTIVKAGKPITKRAWRLISEAGLETIEVAPDTIEGMFLAED
IVNPATGEVLAEAADEITASLVENLREAGISRLPVLHTKGLETSSSLRDTLVLDKTPDME
AAQVEIYRRLRPSSPPTPEIAASFFDNLFRSADYYDLSPVGRYKLNQRLGIDQSVDLRTL
TDDDILRAIRVLLHLKDSHGPADDIDHLGNRRVRPVGELVENQYRIGLVRMERAIKERMS
LQEVSTLMPHDLINPKPVAAVLKEFFGTSQLSQFMDQTNALSEVTHKRRLSALGPGGLTR
ERAGFEVRDVHTSHYGRICPIETPEGPNIGLIVSLTTYAKVNDFGFIETPYRIIREGALT
DEIKFLDASREQGEVVAQANAAVDADGKLADEYVTARVRGDVLMSHRDEVTLMDISPSQM
VSISAALIPFLEHDDANRALMGSNMQRQAVPLLRSEKPIVGTGMEGDVARDSGACILAEG
PGIVRYADATRIIVSYENGLYPDRGGVRAYDLQKYHKSNQNSCFGQRPTCHPGQIVKKGD
VLADGPGIEDGELALGKNLVVAFMPWCGYNFEDSILISERVVKEDVFTSIHIEEFEVVAR
DTKLGPEEITRDIPNVGEDMLRNLDGSGIIRIGASVKPDDILVGKITPKGETQLTPEEKL
LRAIFGDKARDVKNTSLKVPPGIEGTIIDVKVFNRRSGEKDERTRNIEDYETARIDKKEQ
DHVRALGDALRDRLADTLVGKQIAVTLPGKRKGEVLAEAGAPMTRELLDALPVKRLAGLF
KSREVDEMVDTALEDYDRQVAFLKGIYDSKREKVTEGDDLPPGVIKMVKVHIAVKRKLNV
GDKMAGRHGNKGVVSCILPEEDMPFFADGRPVDIVLNPLGVPSRMNIGQIMETHLGWGAK
ELGRQLAEMLDSGAAMATLRHEVKDVFRSATIAKLVDEMDDETFRKAVSKLRTGIVTKTP
VFDGASEEDIWSWIERAGMDGDGKTVLYDGRTGDKFYNRVTTGVMYILKLHHLVDEKIHA
RSTGPYSLVTQQPLGGKAQFGGQRLGEMEVWALEAYGASYLLQEFLTVKSDDVTGRVKMY
EKIVKGDNFLEAGLPESFNVLVKELMSLGLNVTLHQEEGKKRPKRVGFMSAL