Protein Info for Psest_4098 in Pseudomonas stutzeri RCH2

Annotation: Superfamily I 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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 729 PF00580: UvrD-helicase" amino acids 12 to 274 (263 residues), 292.2 bits, see alignment E=1.2e-90 PF13245: AAA_19" amino acids 16 to 257 (242 residues), 76.6 bits, see alignment E=5.4e-25 PF13361: UvrD_C" amino acids 279 to 620 (342 residues), 277.1 bits, see alignment E=7e-86 PF13538: UvrD_C_2" amino acids 560 to 616 (57 residues), 28.5 bits, see alignment 2.8e-10 PF21196: PcrA_UvrD_tudor" amino acids 682 to 724 (43 residues), 31.8 bits, see alignment 2.5e-11

Best Hits

Swiss-Prot: 62% identical to UVRD_ECOLI: DNA helicase II (uvrD) from Escherichia coli (strain K12)

KEGG orthology group: K03657, DNA helicase II / ATP-dependent DNA helicase PcrA [EC: 3.6.4.12] (inferred from 98% identity to psa:PST_0173)

MetaCyc: 62% identical to DNA helicase II (Escherichia coli K-12 substr. MG1655)
RXN-11135 [EC: 5.6.2.4]

Predicted SEED Role

"ATP-dependent DNA helicase UvrD/PcrA" in subsystem DNA repair, bacterial UvrD and related helicases

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.12

Use Curated BLAST to search for 3.6.4.12 or 5.6.2.4

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 L0GPA0 at UniProt or InterPro

Protein Sequence (729 amino acids)

>Psest_4098 Superfamily I DNA and RNA helicases (Pseudomonas stutzeri RCH2)
MHDDLSLLLNSLNDAQRQAVAAPLGRQLVLAGAGSGKTRVLVHRIAWLNQVERASLHSIL
SVTFTNKAAAEMRQRIEQLLHVNPQGMWVGTFHGLAHRLLRAHWQEAKLAQNFQILDSDD
QQRLVKRVIRELGLDEQRWPARQAQWWINAQKDEGLRPRNIQPGGDLFLATQLKIYEAYE
EACARAGVIDFSELLLRALDLWRDHPGLLEHYQRRFRHVLVDEFQDTNAVQYAWLRLLAK
GGESLMVVGDDDQSIYGWRGARIENLHQFSQDFPDAETIRLEQNYRSTACILKAANALIA
NNQGRLGKELWTSGCEGEPISLYAAFNEHDEARYVVESIEKAIRDGMSRSEIAILYRSNA
QSRVLEEALLREKIPYRIYGGQRFFERAEIKNAMAYLRLIQTRDNDAALERVINVPARGI
GEKTVECLRQLAREQGLSMWAALHQAVGTKAVSGRAASALNGFVELVDTLALKVEGMQLH
NMAQLVIEQSGLLAYHRDEKGEKAQARVENLEELVSAARAFDSYSEEDDDIQSPLAAFLD
HASLEAGEQQAGDHEDSVQLMTLHSAKGLEFPLVFLVGMEEGLFPHKMSLEESGRLEEER
RLAYVGITRAMQQLVITYAETRRLYGSETYNKISRFVREIPPALVQEVRLSNTVTRSFNG
KSMSGSSLFDGAGVPETPFSLGQRVRHSLFGEGTILNFEGSGAQARVQVNFEDEGSKWLM
LSYAKLEAL