Protein Info for DDA3937_RS19850 in Dickeya dadantii 3937

Annotation: ATP-dependent DNA helicase RecQ

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 50 100 150 200 250 300 350 400 450 500 550 614 TIGR01389: ATP-dependent DNA helicase RecQ" amino acids 19 to 607 (589 residues), 875.5 bits, see alignment E=1.7e-267 TIGR00614: ATP-dependent DNA helicase, RecQ family" amino acids 20 to 469 (450 residues), 647.1 bits, see alignment E=1.7e-198 PF04851: ResIII" amino acids 31 to 189 (159 residues), 28.2 bits, see alignment E=5.1e-10 PF00270: DEAD" amino acids 32 to 193 (162 residues), 94.4 bits, see alignment E=2e-30 PF00271: Helicase_C" amino acids 225 to 336 (112 residues), 76.7 bits, see alignment E=5.2e-25 PF16124: RecQ_Zn_bind" amino acids 347 to 409 (63 residues), 60.7 bits, see alignment E=5.6e-20 PF09382: RQC" amino acids 411 to 519 (109 residues), 134.5 bits, see alignment E=4.5e-43 PF00570: HRDC" amino acids 539 to 605 (67 residues), 81.4 bits, see alignment E=1.1e-26

Best Hits

Swiss-Prot: 78% identical to RECQ_SALTY: ATP-dependent DNA helicase RecQ (recQ) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K03654, ATP-dependent DNA helicase RecQ [EC: 3.6.4.12] (inferred from 100% identity to ddd:Dda3937_00308)

MetaCyc: 78% identical to ATP-dependent DNA helicase RecQ (Escherichia coli K-12 substr. MG1655)
RXN-11135 [EC: 5.6.2.4]

Predicted SEED Role

"ATP-dependent DNA helicase RecQ" in subsystem DNA-replication or DNA repair, bacterial RecFOR pathway

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 E0SKL7 at UniProt or InterPro

Protein Sequence (614 amino acids)

>DDA3937_RS19850 ATP-dependent DNA helicase RecQ (Dickeya dadantii 3937)
MSTADVLNADVLNKETLAMQVLRETFGYQQFRPGQQAIINAAVSGRDCLVIMPTGGGKSL
CYQIPALVLEGLTLVVSPLISLMKDQVDQLQAYGVAAACLNSTQTREQQQAVFSACRRGE
LKLLYIAPERLTTDGFLEQLTHWNTTLIAIDEAHCISQWGHDFRPEYRALGQIKQQLPAL
PIVALTATADETTRQDIARLLDLRDPLINISSFDRPNIRYTLVEKFKPLDQLWLFVQGQR
GKSGIVYCNSRAKVEDLCARLQNRGLSVGAYHAGLDNDRRSQVQEAFLRDDLQVVVATVA
FGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAALFYDPADMAWLRRCLEEK
PAGVQLDIERHKLNAMGAFAEAQTCRRLVLLNYFGENRQQACGNCDVCLDPPRRYDGLVD
AQKALSCVYRVGQRFGIGYIAEVLRGANNQRIREFGHDKLPVYGLGKDKTQEQWVSILRQ
LIHLGLLAQNIAHHSALQLTESARPVLRGDVPLQLAVPRVISLSKPRASQKTYGGNYDRK
LFAKLRKLRKSIADEDNIPPYVVFSDATLLEMAELLPVTASELLAVNGVGQRKLERFGTP
FMTLIRDHLDSGDD