Protein Info for Psest_3613 in Pseudomonas stutzeri RCH2

Annotation: DNA-directed RNA polymerase, beta subunit

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 1352 (1345 residues), 1881.3 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 27 to 504 (478 residues), 97.2 bits, see alignment E=3e-31 PF04561: RNA_pol_Rpb2_2" amino acids 155 to 228 (74 residues), 35 bits, see alignment 3.7e-12 amino acids 360 to 459 (100 residues), 59.3 bits, see alignment 1.3e-19 PF04565: RNA_pol_Rpb2_3" amino acids 518 to 585 (68 residues), 103.5 bits, see alignment 1.6e-33 PF10385: RNA_pol_Rpb2_45" amino acids 596 to 660 (65 residues), 73.5 bits, see alignment 3.5e-24 PF00562: RNA_pol_Rpb2_6" amino acids 721 to 1278 (558 residues), 448.7 bits, see alignment E=5.3e-138 PF04560: RNA_pol_Rpb2_7" amino acids 1280 to 1355 (76 residues), 97.7 bits, see alignment 1.3e-31

Best Hits

KEGG orthology group: K03043, DNA-directed RNA polymerase subunit beta [EC: 2.7.7.6] (inferred from 65% identity to aav:Aave_4531)

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 L0GQ28 at UniProt or InterPro

Protein Sequence (1356 amino acids)

>Psest_3613 DNA-directed RNA polymerase, beta subunit (Pseudomonas stutzeri RCH2)
MAYSYTEKKRIRKDFSKLPHVMDVPYLLAIQLDSYREFLQAGATKDQFRDIGLHAAFKSV
FPIISYSGNAALEYVGYRLGEPAFDVKECVLRGVTFAVPLRVKVRLIIFDKESSNKAIKD
IKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGKTHSSGKLLYSARI
IPYRGSWLDFEFDPKDAVFVRIDRRRKLPASVLLRALNYSTEEILDAFYDTNVFHVKGET
LSLELVPQRLRGEIASFDIKDENGKVIVEQGRRITARHINQLDKSGIKELEMPMDYVLGR
TVAKAIVHPATGEIIAECNTELTVDVMAKIVKAQVVRFETLYTNDIDCGPFISDTLKIDS
TTNQLEALVEIYRMMRPGEPPTKDAAETLFNNLFFASERYDLSAVGRMKFNRRIGRTEIE
GSGVLSREDIVAVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAV
KERLSMAESEGLMPQDLINAKPVAAAVKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGP
GGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLAAYARTNQYGFLESPYRVVK
EGEVTDEIVFLSAIEEADHVIAQASAKLDGRKLVDELVAVRHLNEFTVKAPEDVTLMDVS
PKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRSDKPLVGTGMERNVARDSGVCV
VARRGGVIDSVDASRVVVRVHDAEVETGEAGVDIYNLTKYTRSNQNTCINQRPLVRKGDV
VERGDIMADGPSTDMGELALGQNMRVAFMPWNGYNFEDSILLSERVVQEDRFTTIHIQEL
TCVSRDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVGPGDILVGKVTPKGETQLT
PEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFIRDGVERDSRALAIEKMQLDEI
RKDLNEEFRIVEGATFERLRSALVGATAEGGAGLKKGAVITDEILDGLEHGQWFKLRMAE
DALNEQLEKAQAYLSDRRQLLDDKFEDKKRKLQQGDDLAPGVLKIVKVYLAIKRRIQPGD
KMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAAKGL
GEKINLMLEEQRKVAELRKFLHEIYNEIGGRQESLDDLSDQEVLDLANNLRKGVPMATPV
FDGAKEREIKAMLKLADLPESGQMQLFDGRTGNKFERTTTVGYMYMLKLNHLVDDKMHAR
STGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYK
NIVDGDHRMEAGMPESFNVLIKEIRSLGIDIDLETE