Protein Info for PP_4980 in Pseudomonas putida KT2440

Annotation: ATP-dependent RNA helicase

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 50 100 150 200 250 300 350 400 450 500 550 600 626 signal peptide" amino acids 1 to 19 (19 residues), see Phobius details PF04851: ResIII" amino acids 23 to 195 (173 residues), 29.1 bits, see alignment E=1.3e-10 PF00270: DEAD" amino acids 25 to 200 (176 residues), 153.9 bits, see alignment E=5.2e-49 PF00271: Helicase_C" amino acids 236 to 344 (109 residues), 101.5 bits, see alignment E=4.9e-33

Best Hits

KEGG orthology group: K11927, ATP-dependent RNA helicase RhlE [EC: 3.6.4.13] (inferred from 100% identity to ppu:PP_4980)

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

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 Q88D48 at UniProt or InterPro

Protein Sequence (626 amino acids)

>PP_4980 ATP-dependent RNA helicase (Pseudomonas putida KT2440)
MSFASLGLSEALVRAIEAAGYTQPTPVQQRAIPAVLQGRDLMVAAQTGTGKTGGFALPIL
ERLFPAGHPDKSQRHGPRQPRVLVLTPTRELAAQVHDSFKVYARDLPLVSACIFGGVGMN
PQIQAIAKGVDVLVACPGRLLDLAGQGKVDLAHVEILVLDEADRMLDMGFIHDVKKVLAR
LPAKRQNLLFSATFSKDITDLADKLLHNPERIEVTPPNTTVERIEQRVYRLPASHKRALL
AHLITLGAWEQVLVFTRTKHGANRLAEYLEKQGLTAAAIHGNKSQNARTKALADFKANSV
RVLVATDIAARGLDIDQLPHVVNFELPNVEEDYVHRIGRTGRAGRSGEAISLVAPDEEKL
LKSIERVTKQRIADGDLMGFDASQVEAEKPEARERPQNNGRGGRNQQARGEGGKDTNGGR
KDKGKDKGKARQQAAAKPDDKEKSGDKQQPRKPRDKKSRPQQASNNSVPKPPADRDPEEF
LDDELDNFGNRADYVSPYQGKNQGRNRRPGGAGQGQGQGNGQRSNAGGQGQARNGGQPRS
GGGEKRPPRANNGGGARRDGGGGRGRPARDDAARQEPAVRNPRQPEKQPVIIRKESKLDR
FPTPEQLDDLPSRPRGERPALLTRKG