Protein Info for AMB_RS15815 in Magnetospirillum magneticum AMB-1

Annotation: DNA-directed RNA polymerase subunit beta

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 1391 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 9 to 1386 (1378 residues), 1939.8 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 27 to 531 (505 residues), 83.3 bits, see alignment E=5.5e-27 PF04561: RNA_pol_Rpb2_2" amino acids 387 to 488 (102 residues), 75 bits, see alignment 1.9e-24 PF04565: RNA_pol_Rpb2_3" amino acids 547 to 615 (69 residues), 108.5 bits, see alignment 4.4e-35 PF10385: RNA_pol_Rpb2_45" amino acids 625 to 690 (66 residues), 91.8 bits, see alignment 6.5e-30 PF00562: RNA_pol_Rpb2_6" amino acids 752 to 1311 (560 residues), 477.3 bits, see alignment E=1.1e-146 PF04560: RNA_pol_Rpb2_7" amino acids 1313 to 1387 (75 residues), 98 bits, see alignment 1.1e-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 Q2W2I1 at UniProt or InterPro

Protein Sequence (1391 amino acids)

>AMB_RS15815 DNA-directed RNA polymerase subunit beta (Magnetospirillum magneticum AMB-1)
MAKSYTGRKRVRKSFGRIPTVAPMPNLIEVQKSSYDHFLQMDTAPEQRGNVGLQEVFKSV
FPIKDFSERGTLEFVRYELEQPKYDVEECQQRGMTFAAPLKVTLRLVVWDIDEDTGSRSI
RDIKEQDVYMGDMPLMTSNGTFVINGTERVIVSQMHRSPGVFFDHDKGKTHSSGKYLFAA
RVIPYRGSWLDFEFDAKDLVYVRIDRRRKLPVTTLLYALDGMNTAALRAQRAAEGRGLEQ
SEIKGMTSEEILSYFYGKVVYTRGPKGWKTPFDAERLKGVKLVSDLIDAKSGEKVADAGS
KMTPRLGKKLREAGLTDIVVFPEDMIGQYVAEDIINEQTGEIFTEAGDELTANLVAELEK
AGISELPVLAIDHINVGPYMRNTLAIDKNSSREEALIDIYRVMRPGEPPTLETAEALFTG
LFFDSERYDLSAVGRVKMNSRLNTPEVADTVRVLRKEDILGVIKVLVELKDGKGEIDDID
HLGNRRVRSVGELMENQYRVGLLRMERAIRERMSSVDIDSVMPHDLINAKPAAAAVREFF
GSSQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEG
PNIGLINSLATYARVNQYGFIEAPYRKVFDGRVTSDVVYLSAMEEGRYTVAQANSILDAD
GRFTEDLVSCRRAGDFVMVPPNEINMIDVSPKQLVSVAAALIPFLENDDANRALMGSNMQ
RQAVPLIRAEAPLVGTGMEQAVARDSGAAITAKRTGVVDQVDATRVVIRATEETQASASG
VDIYNLLKFQRSNQNTCITQRPLVKVGDLIQKGDIIADGPSTQLGELALGRNVLVAFMPW
NGYNFEDSILISERIVRDDVFTSIHIEEFEVMARDTKLGQEEITRDIPNVGEEALKNLDE
AGIVYIGAEVKPGDILVGKVTPKGESPMTPEEKLLRAIFGEKASDVRDTSLRLPPGVSGT
IVEVRVFSRRGVEKDERALAIERAEIERLAKDRDDERHILERSFFARLKALIIGKKVVSG
PKGIKAGTVLADANMDELHPSTWRNIAIDDDAVMADAEALKRAFDQQVDKLQERFENKVE
KLQRGDELPPGVMKMVKVFVAVKRKLQPGDKMAGRHGNKGVISRIVPLEDMPYLEDGQQV
DIVLNPLGVPSRMNVGQILETHLGWACAGLGQQIGGMLDKYKRNAATIIDLKSKLKDVYG
DAIYEDEIAGLADNEITELAHNLTPGVPIATPVFDGARESDIVAMLTKAGRSSSGQVTLV
DGRTGEPFDRKVTVGYIYMLKLHHLVDDKIHARSIGPYSLVTQQPLGGKAQFGGQRFGEM
EVWALEAYGAAYTLQEMLTVKSDDVSGRTKVYEAIVRGDDTFEAGIPESFNVLVKELRSL
GLNVELTQRNY