Protein Info for HER17_RS02990 in Pectobacterium carotovorum WPP14

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 967 PF18339: Tudor_1_RapA" amino acids 3 to 53 (51 residues), 85.2 bits, see alignment 8.5e-28 PF18337: Tudor_RapA" amino acids 55 to 117 (63 residues), 91.4 bits, see alignment 1.1e-29 PF04851: ResIII" amino acids 155 to 316 (162 residues), 45.5 bits, see alignment E=2.8e-15 PF00270: DEAD" amino acids 157 to 316 (160 residues), 30 bits, see alignment E=1.5e-10 PF00176: SNF2-rel_dom" amino acids 171 to 442 (272 residues), 68.6 bits, see alignment E=1.8e-22 PF00271: Helicase_C" amino acids 490 to 600 (111 residues), 66.2 bits, see alignment E=1.1e-21 PF12137: RapA_C" amino acids 604 to 964 (361 residues), 504.2 bits, see alignment E=7.1e-155

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 85% identity to dda:Dd703_0608)

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 (967 amino acids)

>HER17_RS02990 RNA polymerase-associated protein RapA (Pectobacterium carotovorum WPP14)
MPFTLGQRWISDTESELGLGTVVAVDTRMITLLFPASGENRLYSRSDAPITRVMFNPGDT
VTSHEGWQLKVDDVREEKGLLVYCGQRLDDETSAELREVFLDSKLTFNKPQDRLFAGQID
RMDRFALRYRARKHQNEQALQQWGGLRGMRASLIPHQLHIAHEVGQRHAPRVLLADEVGL
GKTIEAGMIIHQQLLAGRASRVLIVVPETLQHQWLVEMLRRFNLLFSLFDDERYAEAKLD
SSNPFETEQLVICSLGFVQRSAQRFAQLVNADWDLLVVDEAHHLVWSEESPSPEYQAIET
LARATPAVLLLTATPEQLGQQSHFARLRLLDPNRFHDYHEFVAEQQQYRPVADAVTLLLA
GEKAQTAELNALSDLLGEQDIEPLLKAINSDSDDNQKARQELITMLMDRHGTSRVLFRNT
RQGVKGFPQRVLHQIRLPLPAQYQTAIKVSGIMNANKALEVRARDMLYPEQIYQQLEGDD
ATWWNFDPRVEWLLNYLTANRDEKILVICAQAATALQLEQVLRTREAIRAAVFHEGLSIL
ERDRAAAYFASEEEGAQVLICSEIGSEGRNFQFASHLVMFDLPFNPDLLEQRIGRLDRIG
QAKEIQIMVPYLENTAQALLVRWYHEGLDAFEHTCPTGRTIYDAHHAQLIERLTTVGEQQ
GLDEFIHVCRQQHDNLKQQLEQGRDRLLEMHSNGGEQAQLLAQAIAEQDNDVNLVTFALN
LFDIVGINQEDRSDNLIILTPSDHMLVPDFPGLPQDGCTITFDRDQALSREDAQFISWEH
PLIRNGLDLVLSGDTGSCAVSLLKNKALPVGTLLAELVYVVEAQAPKHLQLTRFLPPTPV
RLLMDRKGTNLAAQVEFESFNRQLNAVNRHTSSKLVNAVQPDVHAMLQQAEALVETQARQ
LITEAQEQADLQLRRELERLEALKAVNPNIREDELTALENQREQVLSNLHEANWRLDAIR
LVVVTHQ