Protein Info for DDA3937_RS19880 in Dickeya dadantii 3937

Annotation: DNA helicase II

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 50 100 150 200 250 300 350 400 450 500 550 600 650 720 TIGR01075: DNA helicase II" amino acids 6 to 718 (713 residues), 1371.8 bits, see alignment E=0 PF00580: UvrD-helicase" amino acids 10 to 271 (262 residues), 308.1 bits, see alignment E=2.4e-95 PF13245: AAA_19" amino acids 14 to 255 (242 residues), 84.3 bits, see alignment E=3.1e-27 PF13361: UvrD_C" amino acids 277 to 616 (340 residues), 273.3 bits, see alignment E=1.4e-84 PF13538: UvrD_C_2" amino acids 556 to 612 (57 residues), 30.5 bits, see alignment 9.1e-11 PF21196: PcrA_UvrD_tudor" amino acids 673 to 715 (43 residues), 50.4 bits, see alignment 5.8e-17

Best Hits

Swiss-Prot: 88% identical to UVRD_SALTY: DNA helicase II (uvrD) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K03657, DNA helicase II / ATP-dependent DNA helicase PcrA [EC: 3.6.4.12] (inferred from 100% identity to ddd:Dda3937_00301)

MetaCyc: 88% 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)

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 E0SKM4 at UniProt or InterPro

Protein Sequence (720 amino acids)

>DDA3937_RS19880 DNA helicase II (Dickeya dadantii 3937)
MDVSDLLDSLNDKQRDAVAATRSNMLVLAGAGSGKTRVLVHRIAWLLTVENCSPYSIMAV
TFTNKAAAEMRHRIDQLLGTSQGGMWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSEDQL
RLLKRLIKALNLDEKQWPPRQAMWYINGKKDEGLRPQHIDSYGNPVEQTWLRIYQAYQEA
CDRAGLVDFAELLLRAHELWLNKPHILQHYRDRFSNILVDEFQDTNRIQYAWIRLLAGDS
AKVMIVGDDDQSIYGWRGAQVENIQHFLRDFSDVTTIRLEQNYRSTANILNAANALIAHN
GDRLGKNLWTDGIEGEPISLYCAFNELDEARFVVSRIKVWQEAGGALSECAILYRSNAQS
RVLEEALLQQSLPYRIYGGMRFFERQEIKDALSYLRLMTNRNDDAAFERVVNTPTRGIGD
RTLDVVRQTARDRQLTLWQSTRALLQEKVLAGRAAAALQRFLELVDALASDTADLPLHVQ
TDRVIRDSGLWSMYEQEKGEKGQARVENLEELVTATRQFSYQDEDQDLLPLQAFLSHAAL
EAGEGQADAYQDAVQLMTLHSAKGLEFPQVFVVGMEEGMFPSQMSLDEGGRLEEERRLAY
VGVTRAMQKLTLTYAESRRLYGKETYHRPSRFIGELPPECVEEVRLRASVSRPVNHQRLG
TPISQSDTGYKLGQRVRHAKFGEGTIVNVEGSGDHCRIQVAFAGQGIKWLVAAYARLDTV