Protein Info for EX31_RS18015 in Rahnella sp. WP5

Annotation: DNA helicase IV

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 50 100 150 200 250 300 350 400 450 500 550 600 650 684 PF12462: Helicase_IV_N" amino acids 1 to 164 (164 residues), 210 bits, see alignment E=6.1e-66 PF00580: UvrD-helicase" amino acids 197 to 490 (294 residues), 159.1 bits, see alignment E=5.5e-50 PF13245: AAA_19" amino acids 208 to 475 (268 residues), 75.1 bits, see alignment E=1.9e-24 PF13361: UvrD_C" amino acids 571 to 659 (89 residues), 40.6 bits, see alignment E=6.7e-14 PF13538: UvrD_C_2" amino acids 638 to 660 (23 residues), 29.2 bits, see alignment (E = 2.1e-10)

Best Hits

Swiss-Prot: 68% identical to HELD_ECOLI: DNA helicase IV (helD) from Escherichia coli (strain K12)

KEGG orthology group: K03658, DNA helicase IV [EC: 3.6.4.12] (inferred from 100% identity to rah:Rahaq_1556)

MetaCyc: 68% identical to DNA helicase IV (Escherichia coli K-12 substr. MG1655)
RXN-11135 [EC: 5.6.2.4]

Predicted SEED Role

"DNA helicase IV" 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

Find the best match in UniProt

Protein Sequence (684 amino acids)

>EX31_RS18015 DNA helicase IV (Rahnella sp. WP5)
MELKSTSFGKHLAQHPYNRVRLLNAGVEVSGDKHHYLIPFNQLIQIRCKRGIVWGELEFE
LPEQKVVRLHGTEWQETQRFYQYLLNIWQTWSLEMSEVSAGVLRGQVEKITQIEQQDKWF
KRIDLADVQKDITEAFSAIPVPVERLTEFDNCREDYQTCLRWLEQGKRSVDRRNLAWTDR
VIADNRDFFDTVEVSPLNDSQCRAVVNGEDAVLVLAGAGSGKTSVLVARAGWLLRRQEAH
PEQILLLAFGRQAADEMNGRIKERLHTEGIKAKTFHALALQIIQEGSKKAPKISKLETDS
KARRSLLIKTWQQQCAEKKVQASGWRQWMTDELEWTVPEGDYWKNKSLAERLGSRLERWL
SLMRMHGGSQAEMIESAPEDVKDLFTKRIRLMAPLMKAWKTALKEEGAVDFSGLIHQAVN
ILEKGRFVSPWKHILVDEFQDISPQRALLLSALRKLNKHTSLFAVGDDWQAIYRFSGAEL
SLTTAFADNFGEGAQCALDTTYRFNDRIGEIANKFVQQNPYQLKKPLNSLTKGNKKNVVI
LPEDQMEKLLDKLSGYVTADEHILVLARYHHLRPQILEKAATRWPKLNLDFMTIHASKGQ
QAEYVIIVGLHGGNDGFPAPARESLLEEVLLPEPENFLDAEERRLLYVAMTRAKHQVWLL
QDKERPSVFVEQLEDIGVPVQRKP