Protein Info for GFF8 in Xanthobacter sp. DMC5

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 1358 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 9 to 1354 (1346 residues), 1973 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 27 to 507 (481 residues), 83.8 bits, see alignment E=3.7e-27 PF04561: RNA_pol_Rpb2_2" amino acids 158 to 228 (71 residues), 30.6 bits, see alignment 8e-11 amino acids 354 to 462 (109 residues), 76.2 bits, see alignment E=8.5e-25 PF04565: RNA_pol_Rpb2_3" amino acids 521 to 589 (69 residues), 107.4 bits, see alignment 9.9e-35 PF10385: RNA_pol_Rpb2_45" amino acids 599 to 664 (66 residues), 99.5 bits, see alignment 2.7e-32 PF00562: RNA_pol_Rpb2_6" amino acids 726 to 1280 (555 residues), 471.5 bits, see alignment E=6.4e-145 PF04560: RNA_pol_Rpb2_7" amino acids 1282 to 1356 (75 residues), 98 bits, see alignment 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)

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

Find the best match in UniProt

Protein Sequence (1358 amino acids)

>GFF8 DNA-directed RNA polymerase subunit beta (Xanthobacter sp. DMC5)
MAQTFTGRKRIRKFFGKIKEVAEMPNLIEVQKASYDQFLQIEEPKGGRDDDGLQAVFKSV
FPISDFSGAAMLEFVRYEFEPPKYDVDECRQRGMTFAAPLKVTLRLIVFDVDPDTGAKSV
KDIKEQDVYTGDIPLMTMNGTFIVNGTERVIVSQMHRSPGVFFDHDKGKTHSSGKLLFAA
RIIPYRGSWLDIEFDAKDIVYARIDRRRKIPVTSLLYALGLDSEEILSTFYEKIPYERAK
GGWRMPFDPKRMKGYKAVSDLVDADTGEVVLEAGKKLTVRAARQLAEKGLKFLKISDEEM
VGQYIAEDLVDIASGEIHAEAGDEITEKTLKLLEEAGYNEIPILDIDHVNTGAYIRNTLA
ADKNVTREDALFDIYRVMRPGEPPTLDSAQAMFHSLFFDPERYDLSAVGRVKMNMRLDLD
CPDTVRVLRRDDILSVIKTLVELRDGKGEIDDIDHLGNRRVRSVGELMENQYRVGLLRME
RAIKERMSSVDIDTVMPQDLINAKPVAAAVREFFGSSQLSQFMDQTNPLSEITHKRRLSA
LGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATFARVNKYGFIEAPYR
RVVDSKVTDEVVYLSAMEEGKYYVAQANIPLDKDGRFEEDLIVCRHAGDVLLVSPDRVDF
MDVSPKQLVSVAAALIPFLENDDANRALMGSNMQRQAVPLVRSQAPLVGTGMEAVVARDS
GAAIAARRTGVIDQVDATRIVIRATEEADPSKSGVDIYRLMKFQRSNQSTCINQRPLVRV
GDQVKRGDIIADGPSTELGELALGRNVLVAFMPWNGYNFEDSILLSENIVKEDVFTSIHI
EEFECMARDTKLGPEEITRDIPNVSEEALKNLDEAGIVYIGAEVRAGDILVGKITPKGES
PMTPEEKLLRAIFGEKAADVRDTSLRLPPGTTGTIVEVRVFNRHGVDKDERALAIEREEI
ERLAKDRDDEQAILDRNVYGRLTEILDGKVAIAGPKGFKKETAVTREILGEYPRSQWWLF
AVADDAIMAELEAIRAQYDDSKKRLEQRFLDKVEKLQRGDELPPGVMKMVKVFVAVKRKI
QPGDKMAGRHGNKGVVSRIVPVEDMPFLEDGTNVDIVLNPLGVPSRMNVGQILETHLGWA
CAGLGRQVAAAAEAYYARQDLKPVRDRLETIYGKEEIDQLKDSELPELAENLRKGVPMAT
PVFDGAHEADIEQELERAGLDRSGQSTLFDGRTGEPFDRKVTVGYIYMLKLHHLVDDKIH
ARSIGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVAGRTKV
YEAIVRGEDTFESGIPESFNVLVKEMRSLGLNVDLENT