Protein Info for HER17_RS08775 in Pectobacterium carotovorum WPP14

Annotation: transcription-repair coupling factor

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 1150 PF17757: UvrB_inter" amino acids 129 to 218 (90 residues), 96.6 bits, see alignment 3e-31 TIGR00580: transcription-repair coupling factor" amino acids 146 to 1080 (935 residues), 1196.4 bits, see alignment E=0 PF21132: MFD_D3" amino acids 378 to 450 (73 residues), 103.6 bits, see alignment 1.8e-33 PF02559: CarD_TRCF_RID" amino acids 478 to 533 (56 residues), 70 bits, see alignment 5.6e-23 PF04851: ResIII" amino acids 601 to 759 (159 residues), 48.8 bits, see alignment E=3.1e-16 PF00270: DEAD" amino acids 603 to 765 (163 residues), 96.5 bits, see alignment E=6.1e-31 PF00271: Helicase_C" amino acids 803 to 907 (105 residues), 70.7 bits, see alignment E=4.9e-23 PF03461: TRCF" amino acids 1007 to 1099 (93 residues), 98.4 bits, see alignment E=1e-31

Best Hits

Swiss-Prot: 84% identical to MFD_ECOLI: Transcription-repair-coupling factor (mfd) from Escherichia coli (strain K12)

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 65% identity to aat:D11S_0770)

Predicted SEED Role

"Transcription-repair coupling factor" in subsystem DNA-replication or Transcription factors bacterial

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.-

Use Curated BLAST to search for 3.6.4.-

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

Find the best match in UniProt

Protein Sequence (1150 amino acids)

>HER17_RS08775 transcription-repair coupling factor (Pectobacterium carotovorum WPP14)
MMPENYRYSLPPKAGEQRLLGQLTGAACAVECAEIIERHAGLVVLIAPDMQNALRLRDEI
QQFTDQHVTTLPDWETLPYDSFSPHQEIISTRLSTLYQLPNMTRGVLILPVNTLMQRVCP
HSFLHGHALVLKKGQRLSRDKLRSQLEQAGYRSVDQVMEHGEYATRGALLDLFPMGSEEP
YRIDFFDDEIDSLRLFDVDTQRTLNEVPHINLLPAHEFPTDKTAIELFRSQWREQFEVRR
DAEHIYQQVSKGVWPAGIEYWQPLFFSEPLPSLFSYFPNNTLLVNTGNLEQSAERFWQDI
QQRFESRRVDPMRPLLPSDSLWLRVDGLFTELKAWPRVQLKTDTLPEKAANVNLAYLPLP
ELAIQHQQKSPLDALRRFIEQFDGQVIFSVESEGRRETLQELLARIKLNPTLISTLEQAQ
DRGTYLIIGASEHGFIDTLRQRALICESDLLGERVSRRRQDSRRTINTDTLIRNLAELRP
GQPVVHLEHGVGRYAGLTTLEAGGIKAEYLILTYAGEDKLYVPVSSLHLISRYAGGADEN
APLHKLGGDAWSRARQKAAERVRDVAAELLDIYAQRAAKSGFAFKHDKTQYQLFCESFPF
ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTT
LLAQQHFDNFRDRFANWPVKIEMISRFRSAREQTQVLEETQEGKVDILIGTHKLLQSDVR
WRDLGLLIVDEEHRFGVRHKERIKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATP
PARRLAVKTFVREYDNLVVREAILREILRGGQVYYLYNDVENIEKATQRLAELVPEARIA
IGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPSANTIIIERADHFGLAQLHQL
RGRVGRSHHQAYAYLLTPNPKAMSTDAQKRLEAIASLEDLGAGFALATHDLEIRGAGELL
GDDQSGQMTSVGFSLYMELLESAVDALKAGREPSLEDLINSQTDVELRLPALLPDDFIPD
VNTRLSLYKRIASAKTPAELDELKVELIDRFGLLPDASRYLLQVAALRQQAQALGIRRIE
GNEKGGFIEFSEQNRVDPSHLIGLLQRDPGTYRLDGPTRLKFMKDLSDRPQRIEFIGSLL
GNMAQHTLAA