Protein Info for GFF5016 in Variovorax sp. SCN45

Annotation: ATP-dependent RNA helicase RhlE (EC 3.6.4.13)

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 50 100 150 200 250 300 350 400 427 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF00270: DEAD" amino acids 25 to 196 (172 residues), 153.1 bits, see alignment E=8.9e-49 PF00271: Helicase_C" amino acids 235 to 343 (109 residues), 99.6 bits, see alignment E=2e-32

Best Hits

Swiss-Prot: 53% identical to RHLE_ECOLI: ATP-dependent RNA helicase RhlE (rhlE) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 91% identity to vap:Vapar_0322)

MetaCyc: 53% identical to ATP-dependent RNA helicase RhlE (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

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

Isozymes

No predicted isozymes

Use Curated BLAST to search for 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)

Compare to protein 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 (427 amino acids)

>GFF5016 ATP-dependent RNA helicase RhlE (EC 3.6.4.13) (Variovorax sp. SCN45)
MPFDSLGLAPALVHAAAESGYAAPTAIQAAAIPAILQGRDVRGSAQTGSGKTAAFSLPLL
QRLGAERPPGSTRRVRALVLVPTRELAAQVGETLRSLAQHLPERLKIVVAFGGVSINPQM
MSLRGGADIVVATPGRLLDLADHNALRLDAVATLVLDEADRLFDLGFAEELGRILALLPR
QRQNLLFSATFPPAIQALADATLRDPAVIDVQGEPGTEPNIVQRVIEVDAARRTQLLRHL
LKQHEGEWDRVLVFVATQHAAQTVAEKLYKNGIYAVPFHGDIAQGTRTDILAQFKQSRWD
VVIATDLAARGIDIAQLPVVINYDLPRSPTDYIHRIGRTGRAGESGLAISFVSAASEAHF
RLIEKRQGLSLPRERVEGFEPTEVAPPVVDASGTGGIKGKRPSKKDKLRAAAAKAAAREE
VAGKSGG