Protein Info for Shew_0604 in Shewanella loihica PV-4

Annotation: DEAD/DEAH box helicase domain-containing protein (RefSeq)

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 50 100 150 200 250 300 350 400 450 491 signal peptide" amino acids 1 to 18 (18 residues), see Phobius details PF00270: DEAD" amino acids 25 to 193 (169 residues), 166.9 bits, see alignment E=5.3e-53 PF04851: ResIII" amino acids 25 to 189 (165 residues), 28.9 bits, see alignment E=1.5e-10 PF00271: Helicase_C" amino acids 230 to 338 (109 residues), 105.2 bits, see alignment E=3.4e-34

Best Hits

Swiss-Prot: 63% identical to RHLE_ECOLI: ATP-dependent RNA helicase RhlE (rhlE) from Escherichia coli (strain K12)

KEGG orthology group: K11927, ATP-dependent RNA helicase RhlE [EC: 3.6.4.13] (inferred from 100% identity to slo:Shew_0604)

MetaCyc: 63% 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

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

See A3QAH8 at UniProt or InterPro

Protein Sequence (491 amino acids)

>Shew_0604 DEAD/DEAH box helicase domain-containing protein (RefSeq) (Shewanella loihica PV-4)
MSFTSLGLSAPILKAVADKGYQTPSPIQAQAIPAVLSGKDVMAAAQTGTGKTAGFTLPLL
ELLSQGPRARSKQVRALVLTPTRELAAQIAESVTTYGQHLPLRSAVVFGGVGISPQISQL
KRGVDILVATPGRLLDLYQQDAVSFSQLETLVLDEADRMLDMGFIHDIKKILAILPPKRQ
NLMFSATFSDEIRTLAKGLVNNPVEISVTPRNSTANTVQQLICPVDKNKKSAALVKLIQQ
GDWQQVLVFSRTKHGANRLAKHLEAKGITAAAIHGNKSQGARTKALANFKSGDVRVLVAT
DIAARGLDIDQLPQVVNFDLPNVPEDYVHRIGRTGRAGADGKAVSLVSDEEAKLLADIER
LIGKLLPRAEVEGFEPTHTLPETNLTPKRHGQHKGPRNPKPKSNSQRSSNRSSNGQRSDK
AGQPRRGDQAQGNKEGQGRRRTGASTGTSKPASEGQQAQNQGKQEHRDGNAPARRRRRRR
PSQGTPKPATN