Protein Info for Psest_3166 in Pseudomonas stutzeri RCH2

Annotation: Superfamily II DNA and RNA helicases

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 50 100 150 200 250 300 350 400 450 477 PF00270: DEAD" amino acids 113 to 288 (176 residues), 158.8 bits, see alignment E=1.6e-50 PF04851: ResIII" amino acids 133 to 283 (151 residues), 31.3 bits, see alignment E=2.7e-11 PF00271: Helicase_C" amino acids 323 to 432 (110 residues), 106.6 bits, see alignment E=1.3e-34

Best Hits

Swiss-Prot: 91% identical to RHLB_PSEAB: ATP-dependent RNA helicase RhlB (rhlB) from Pseudomonas aeruginosa (strain UCBPP-PA14)

KEGG orthology group: K03732, ATP-dependent RNA helicase RhlB [EC: 3.6.4.13] (inferred from 91% identity to psa:PST_1177)

MetaCyc: 47% 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)

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

See L0GNS6 at UniProt or InterPro

Protein Sequence (477 amino acids)

>Psest_3166 Superfamily II DNA and RNA helicases (Pseudomonas stutzeri RCH2)
MLKALKKIFGKAPDERAGTTDSSPAAVNEGPQQSAPAAQQIATPDAPSKPPATERTAEKP
RRQRSKPAKPAAPTWKLEDFTVEPAEGKTRFHDFKLAPELMHAIHDLGFPYCTPIQAQVL
GYTLAGRDAIGRAQTGTGKTAAFLISTITQLLDTPPPKDRYMGEPRALIIAPTRELVVQI
ANDALDLTKYTNLNVMSFVGGMDFDKQLKQLESRYCDILVATPGRLLDFNQRGEVHLDMV
EVMVLDEADRMLDMGFIPQVRQIIRQTPPKSERQTLLFSATFTDDVMNLAQQWTTTPAVV
EIEPENVASDTVEQHVFAVAGSDKYKLLYNLITQNDWTRVMVFANRKDEVRRIEERLTRD
GISAAQMSGDVPQHKRIRTLEGFREGKIRVLVATDVAGRGIHVDGISHVINFTLPEDPDD
YVHRIGRTGRAGTSGTSISFAGEDDAFALPPIEALIGRKIQCEMPPAELLAPVPHSR