Protein Info for EX31_RS03745 in Rahnella sp. WP5

Annotation: RNA polymerase-associated protein RapA

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 965 PF18339: Tudor_1_RapA" amino acids 3 to 53 (51 residues), 83.5 bits, see alignment 2.8e-27 PF18337: Tudor_RapA" amino acids 55 to 118 (64 residues), 85.2 bits, see alignment 9.7e-28 PF04851: ResIII" amino acids 156 to 317 (162 residues), 49 bits, see alignment E=2.3e-16 PF00176: SNF2-rel_dom" amino acids 171 to 439 (269 residues), 75.6 bits, see alignment E=1.3e-24 PF00270: DEAD" amino acids 172 to 317 (146 residues), 31.1 bits, see alignment E=6.9e-11 PF00271: Helicase_C" amino acids 488 to 598 (111 residues), 63.7 bits, see alignment E=6.4e-21 PF12137: RapA_C" amino acids 602 to 962 (361 residues), 500.9 bits, see alignment E=7.3e-154

Best Hits

Swiss-Prot: 78% identical to RAPA_CROS8: RNA polymerase-associated protein RapA (rapA) from Cronobacter sakazakii (strain ATCC BAA-894)

KEGG orthology group: K03580, ATP-dependent helicase HepA [EC: 3.6.4.-] (inferred from 78% identity to ebi:EbC_06970)

Predicted SEED Role

"RNA polymerase associated protein RapA (EC 3.6.1.-)" (EC 3.6.1.-)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.6.1.-, 3.6.4.-

Use Curated BLAST to search for 3.6.1.- or 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 (965 amino acids)

>EX31_RS03745 RNA polymerase-associated protein RapA (Rahnella sp. WP5)
MPFTLGQRWISDTESELGLGTVVALDVRMVTLLFPATGENRLYARNDSPITRVMFNPGDT
ISCHEGWQLQVEEVVEDKGLLTYIGTRLDTEETGVAMREVLLDSKLTFSKPQDRLFAGQI
DRMDRFALRFRARKYQREQFRLEFGGLRGMRASLIPHQLHIAYEVGQRHAPRVLLADEVG
LGKTIEAGMIIHQQLLSGRAERILIVVPETLQHQWLVEMLRRFNLRFSLFDDDRYAESIH
EATNPFETEQLVICSLDFVRRNKSRLEQLSDAAWDMLVVDEAHHLVWSEDAPSREYQVIE
QLSQQIPSVLLLTATPEQLGQESHFARLRLLDPDRFHDYEEFIEEQQQYQPVADAVTLLL
NKEPLTPEALALLGESVGNADTDALLTAANKGDEAAAKQLVSMLMDRHGTSRVLFRNTRN
GVKGFPERHLHAVKLPLPTQYQTAIKVSGIMGAKKTAEARAHDMLYPEQIYQEFEGENAT
WWNFDPRVEWLLGYLTANRDEKVLVICAKAATALQLEQVLREREAIRAAVFHEGLSIIER
DRAAAYFASQEEGAQVLLCSEIGSEGRNFQFASKMVMFDLPFNPDLLEQRIGRLDRIGQQ
NNIDIMVPYLEQTAQSVLVRWFHEGLDAFEHTCPTGRTIYDSAYEQLIAFLAAPAAQEGL
DEFILTCRAEHDALKEKLENGRDRLLEMHSNGGERAQQLAKEIGEQDNDVNLVNFALNLF
DIVGINQEDRSDNLIVLTPSDHMLVPDFPGLPEDGCTVTFDREQALSREDAQFISWEHPI
VRNGLDLILSGDTGSCAVSILKNKALPVGTLLAELVYVVECQAPKHLQLTRFLPPTPVRM
LMDRKGTNLAAQVEFESFNRQLNAINRHNSSKLVNAVQQDVHAMLQQAEAEIADQARALI
EAAKVEADEQLTKELGRLKALKEVNPNIRDDELESVDSNRKQVLANLNDASWRLDAIRLV
VVSHQ