Protein Info for HER17_RS01130 in Pectobacterium carotovorum WPP14

Annotation: ATP-dependent RNA helicase RhlB

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 50 100 150 200 250 300 350 400 429 PF00270: DEAD" amino acids 33 to 206 (174 residues), 146.8 bits, see alignment E=7.5e-47 PF04851: ResIII" amino acids 52 to 179 (128 residues), 25.1 bits, see alignment E=2.2e-09 PF00271: Helicase_C" amino acids 242 to 351 (110 residues), 105.8 bits, see alignment E=2.2e-34

Best Hits

Swiss-Prot: 97% identical to RHLB_PECCP: ATP-dependent RNA helicase RhlB (rhlB) from Pectobacterium carotovorum subsp. carotovorum (strain PC1)

KEGG orthology group: K03732, ATP-dependent RNA helicase RhlB [EC: 3.6.4.13] (inferred from 97% identity to pwa:Pecwa_4205)

MetaCyc: 89% identical to ATP-dependent RNA helicase RhlB (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

"ATP-dependent RNA helicase RhlB" in subsystem ATP-dependent RNA helicases, bacterial

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.13

Use Curated BLAST to search for 3.6.4.13 or 5.6.2.e

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 (429 amino acids)

>HER17_RS01130 ATP-dependent RNA helicase RhlB (Pectobacterium carotovorum WPP14)
MSKTHLTEQKFSDFALHPQVIEALESKGFHNCTPIQALALPLALSGRDVAGQAQTGTGKT
LAFLASTFHYLLSHPANAERQTNQPRALIMAPTRELAVQIHSDAEALSHATGLKLGLAYG
GDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMYDLGFIKDIR
WLFRRMPPTAQRLNMLFSATLSYRVRELAFEQMNNAEYVEVEPEQKTGHRIKEELFYPSN
EEKMRLLQTLLEEEWPDRCIIFANTKHRCEDIWGHLAADGHRVGLLTGDVAQKKRLRILE
EFTQGNLDILVATDVAARGLHIPSVTHVFNYDLPDDCEDYVHRIGRTGRAGQSGFSISLA
CEEYALNLPAIETYIGHGIPVSKYNSDALMNDLPAPKRLTRPPRSNNGPRRHNAPRRSGA
PRNNRKRAD