Protein Info for HER17_RS12960 in Pectobacterium carotovorum WPP14
Annotation: DEAD/DEAH box helicase family protein
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
Best Hits
Swiss-Prot: 78% identical to RADD_ECOLI: Putative DNA repair helicase RadD (radD) from Escherichia coli (strain K12)
KEGG orthology group: None (inferred from 97% identity to pwa:Pecwa_1908)MetaCyc: 78% identical to putative DNA repair helicase RadD (Escherichia coli K-12 substr. MG1655)
Nucleoside-triphosphatase. [EC: 3.6.1.15, 3.6.1.5]
Predicted SEED Role
"ATP-dependent RNA helicase YejH"
MetaCyc Pathways
- superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (18/18 steps found)
- superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) (14/14 steps found)
- pyrimidine deoxyribonucleotides de novo biosynthesis I (9/9 steps found)
- pyrimidine deoxyribonucleotides de novo biosynthesis III (8/9 steps found)
- pyrimidine deoxyribonucleotides de novo biosynthesis IV (6/7 steps found)
- pyrimidine deoxyribonucleotides biosynthesis from CTP (6/8 steps found)
- UTP and CTP dephosphorylation I (5/7 steps found)
- UTP and CTP dephosphorylation II (1/3 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 3.6.1.15
Use Curated BLAST to search for 3.6.1.15 or 3.6.1.5
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 (592 amino acids)
>HER17_RS12960 DEAD/DEAH box helicase family protein (Pectobacterium carotovorum WPP14) MSFTQSASFTLRPYQREAVSATLDYFRRHTQPAVIVLPTGAGKSLVIAELARLARGRVLV LAHVKELVAQNHAKYCALDLEADIFAAGLQQRESQGKVVFGSVQSVARNLDQFDNAFSLL IIDECHRISDDDNSQYQQIIQHLQKTNPQLRLLGLTATPYRLGKGWIYQYHYHGMIRGDE RSLFRDCIYELPLRYMIKHGFLVPPDRLDMPVVQYDFSKLVARSNGLFSEADLNLELKRQ QRITPHIISQVIDYAQTRRGVMIFASTVEHAKEITALLPAGQAALVSADTPAAERDALIN AFKQQSLRYLVNVAVLTTGFDAPHVDLIAILRPTESVSLYQQIVGRGLRLYQGKTDCLIL DYAGNPHDLYTPEVGNSKPHAGSQPVQVFCPECGFANLFWGKTTPDGDIIEHYGRRCQGW EMAESGQRQQCDFRFRFKVCPHCGAENDIAARRCHQCDEVLVDPDDMLKAALKLKDALVL RCSGMSFEQGQDAKGEWLKITYHDEEGAEVSERFRLHTTAQRHVFLQQFLRVHQRAPGTP FSWHNAADVIAQQLLLRAPDFVVARKHGKFWQIREKLFDYQGRFRRANELRG