Protein Info for HSERO_RS15180 in Herbaspirillum seropedicae SmR1

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 1145 PF17757: UvrB_inter" amino acids 137 to 224 (88 residues), 78.6 bits, see alignment 1.1e-25 TIGR00580: transcription-repair coupling factor" amino acids 154 to 1080 (927 residues), 1042.9 bits, see alignment E=0 PF21132: MFD_D3" amino acids 377 to 450 (74 residues), 69.8 bits, see alignment 5.6e-23 PF02559: CarD_TRCF_RID" amino acids 479 to 535 (57 residues), 69.2 bits, see alignment 9.1e-23 PF00270: DEAD" amino acids 604 to 764 (161 residues), 89.2 bits, see alignment E=9e-29 PF04851: ResIII" amino acids 605 to 760 (156 residues), 37.2 bits, see alignment E=9.8e-13 PF00271: Helicase_C" amino acids 805 to 908 (104 residues), 67.5 bits, see alignment E=4.1e-22 PF03461: TRCF" amino acids 1008 to 1100 (93 residues), 94.1 bits, see alignment E=1.9e-30

Best Hits

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 74% identity to bcj:BCAL2017)

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

See D8J0F7 at UniProt or InterPro

Protein Sequence (1145 amino acids)

>HSERO_RS15180 transcription-repair coupling factor (Herbaspirillum seropedicae SmR1)
MSFDPKKSLPKAGIRFQPPAVHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAE
IPWFQPSEGERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTA
LLRMAPPQFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFP
MGSVLPYRLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWRE
VFEGDPSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKR
FWSDTRSRWNFLHADRERPVLEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPN
IAVNRRADDPLVNLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLA
SDEPLMLGVAPLHAGFVTAAGLALVTETELYAGSGRRVGSRKQQAATDVEYMVRDLSELK
IGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPE
DAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFG
FEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPT
TLLAEQHAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEV
KFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIAT
APQKRLAIKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARI
GVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQ
LRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEV
LGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCG
DVHERLSLYKRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKI
DAHSEAALLQFVPNPPIDAMRIIELVQKNRQVKLNGPDKLRITASMPDLNARVQQVKATM
KALTG