Protein Info for Xcc-8004.4152.1 in Xanthomonas campestris pv. campestris strain 8004

Annotation: DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)

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 1387 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 13 to 1385 (1373 residues), 1832.8 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 32 to 531 (500 residues), 103 bits, see alignment E=4.8e-33 PF04561: RNA_pol_Rpb2_2" amino acids 160 to 231 (72 residues), 32.7 bits, see alignment 1.8e-11 amino acids 366 to 423 (58 residues), 23.5 bits, see alignment (E = 1.2e-08) amino acids 453 to 486 (34 residues), 26 bits, see alignment (E = 2.1e-09) PF04565: RNA_pol_Rpb2_3" amino acids 546 to 612 (67 residues), 97.2 bits, see alignment 1.5e-31 PF10385: RNA_pol_Rpb2_45" amino acids 623 to 688 (66 residues), 81.7 bits, see alignment 9.5e-27 PF00562: RNA_pol_Rpb2_6" amino acids 750 to 1310 (561 residues), 456.5 bits, see alignment E=2.3e-140 PF04560: RNA_pol_Rpb2_7" amino acids 1312 to 1386 (75 residues), 97.2 bits, see alignment 1.8e-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)

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 Q4URD2 at UniProt or InterPro

Protein Sequence (1387 amino acids)

>Xcc-8004.4152.1 DNA-directed RNA polymerase beta subunit (EC 2.7.7.6) (Xanthomonas campestris pv. campestris strain 8004)
VEDLMTSYSFTEKKRIRKDFGKQRSILEVPFLLAIQVDSYREFLQEDVEPNKRKDLGLHA
ALKSVFPISSYSGNAALEYVGYKLGEPVFDERECRQRGMSYGAPLRVTVRLVIYDRESST
KAIKYVKEQEVYLGEIPLMTENGTFIVNGTERVIVSQLHRSPGVFFDHDRGKTHSSGKLL
YSARIIPYRGSWLDFEFDPKDALFTRIDRRRKLPVSILLRALGYNNEEMLAEFFEINTFH
INPDEGVQLELVPERLRGETLNFDLADGDKVIVEAGKRITARHVKQLEAAGVAALAVPDD
YLVGRILSHDVVDGSTGELLANANDEISEDQLAAFRKAGVDAVGTLWVNDLDRGPYLSNT
LRIDPTKTQLEALVEIYRMMRPGEPPTKEAAQNLFHNLFFTFERYDLSTVGRMKFNHRVG
RKEVLGESVLYDKKYFAERNDEESKRLVAEHADTSDILEVIKVLTEIRNGRGVVDDIDHL
GNRRVRSVGEMAENVFRVGLVRVERAVKERLSMAESEGLTPQELINAKPVAAAIKEFFGS
SQLSRFMDQNNPLSEVTHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCTIETPEGPN
IGLINSLAVFARTNQYGFLETPYRKVLDGKVSDDVEYLSAIEENEYVIAQANALTDAKNM
LTEQFVPCRFQGESLLKPPAEVHFMDVSPMQTVSVAAALVPFLEHDDANRALMGANMQRQ
AVPTLRSQKPLVGTGIERAVARDSGVTVNARRGGVIEQIDAARIVVKVNEAEIGGGTDAG
VDIYNLIKYTRSNQNTCINQRPLVNVGDVIARGDVLADGPSTDIGELALGQNMLIAFMPW
NGYNFEDSILLSERVVEEDRYTTIHIEELTCVARDTKLGPEEISADIPNVSEQALNRLDE
SGVVYIGAEVRAGDIMVGKVTPKGESQLTPEEKLLRAIFGEKASDVKDSSLRVPPGMDGT
VIDVQVFTRDGIEKDKRARQIEESEIKRVKKDFDDQFRILEAAIYARLRSQIVGKVANGG
PNLKKGDNVTDAYLDGLKKSDWFQLRMKDDDAADAIERAQKQIQAHEKEFEARFADKRGK
ITQGDDLAPGVLKMVKVFLAVKRRIQPGDKMAGRHGNKGVVSNVVPVEDMPYMATGEPVD
IVLNPLGVPSRMNIGQILEVHLGWAAKGLGRKIQRMLEAQTAVSELRKFLDDIYNHDSAI
NAERVDLSQFSDEELLNLGKNLIDGVPMATPVFDGASEAEIKRMLELAELPQSGQTQLYD
GRTGEAFDRKTTVGYMHYLKLNHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEME
VWALEAYGAAYTLQEMLTVKSDDVQGRNQMYKNIVDGEHEMVAGMPESFNVLVKEIRSLA
INMELEE