Protein Info for PP_4532 in Pseudomonas putida KT2440

Annotation: ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis

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 50 100 150 200 250 300 350 400 440 PF00270: DEAD" amino acids 24 to 189 (166 residues), 154.1 bits, see alignment E=4.5e-49 PF04851: ResIII" amino acids 37 to 185 (149 residues), 30.9 bits, see alignment E=3.6e-11 PF00271: Helicase_C" amino acids 235 to 338 (104 residues), 105.1 bits, see alignment E=3.7e-34

Best Hits

KEGG orthology group: None (inferred from 100% identity to ppf:Pput_1378)

Predicted SEED Role

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

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 Q88ED3 at UniProt or InterPro

Protein Sequence (440 amino acids)

>PP_4532 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis (Pseudomonas putida KT2440)
MFSQFALHERLLKAVAELKFVEPTPVQAAAIPLALQGRDLRVTAQTGSGKTAAFVLPLLN
RLVDLSGPRVEIRALILLPTRELAQQTLKQVQLFSQFTYIKSGLVTGGEDFKEQAAMLRK
VPDVLIGTPGRLLEQLNAGNLDLSHVQVLILDEADRMLDMGFAEDMERLCKECENREQTL
LFSATTGGAALRDIIGKVLKDPEHLMLNSVSQLAEGTRQQIITADHDQHKEQIAQWLLAN
ETFDKAIIFTNTRAMADRIYGHLVAKDVKAFVLHGEKDQKDRKLAIERFKQGSSKVLVAT
DVAARGLDIDGLDLVINFDMPRSGDEYVHRVGRTGRAGGEGLAISLITHNDWNLMSSIER
YLKQQFERRVIKEVKGTYNGPKKVKASGKAAGSKKKKVEKKTGDKKAAAKRKPTAKPKAN
APLASADGLAPLKKRKPAAE