Protein Info for AMB_RS03505 in Magnetospirillum magneticum AMB-1

Annotation: type I DNA topoisomerase

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 896 PF01751: Toprim" amino acids 3 to 115 (113 residues), 69.9 bits, see alignment E=3.4e-23 TIGR01051: DNA topoisomerase I" amino acids 4 to 636 (633 residues), 781.4 bits, see alignment E=4.7e-239 PF01131: Topoisom_bac" amino acids 130 to 556 (427 residues), 404 bits, see alignment E=1.6e-124 PF01396: Zn_ribbon_Top1" amino acids 601 to 636 (36 residues), 50.6 bits, see alignment (E = 2.6e-17) PF13368: Toprim_C_rpt" amino acids 656 to 735 (80 residues), 35.3 bits, see alignment E=1.8e-12 amino acids 740 to 792 (53 residues), 61.9 bits, see alignment 8.8e-21 amino acids 803 to 854 (52 residues), 65.5 bits, see alignment 6.8e-22

Best Hits

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 100% identity to mag:amb0682)

Predicted SEED Role

"DNA topoisomerase I (EC 5.99.1.2)" in subsystem Conserved gene cluster associated with Met-tRNA formyltransferase or DNA topoisomerases, Type I, ATP-independent or pVir Plasmid of Campylobacter (EC 5.99.1.2)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 5.99.1.2

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 Q2W9I9 at UniProt or InterPro

Protein Sequence (896 amino acids)

>AMB_RS03505 type I DNA topoisomerase (Magnetospirillum magneticum AMB-1)
MKVVVVESPAKAKTINKYLGSDFHVLASYGHIRDLPPKDGSVRPDEGFAMDWETDPKSER
QIKEIVAAVKGADKLFLATDPDREGEAISWHVRQVLEARKALKGVEVKRVVFNEITKSAV
LDAMRNPREIHQELVDAYLARRALDYLVGFTLSPVLWRKLPGSRSAGRVQSVALRLICER
ESEIESFKPREYWTIAADFLTPKGALLSAGLTHLGGKKLDKFDLSSEALARDAESKAASA
RYAVAAVERKRTRRNPYPPFTTSTLQQEASRKLYFAAARTMQLAQRLYEGVDIGGETVGL
ITYMRTDGVQMAAEAIAGARAVIAQDFGKVYVPEAPRVYKTKAKNAQEAHEAIRPTDLAR
RPEDVARYLDKDQLRLYELIWKRTLASQMAAAELDQVGVDIAGDQHGIVFRATGSVVVFD
GFLKVYREDKDDSDDEDAEKLLPDVTEKDAMDRKAMRTEQHFTQPPPRFSEASLVKRMEE
LGIGRPSTYASILSVLQERNYVRLDQRRFIPEDRGRLVTAFLESFFGRYVEYNFTADLEN
QLDDVSGGRDDWRKVLDRFWRDFSGAVDETKDLRVAQVLDALDELLGPHFFPDNGTGHDP
RSCPTCNAGRLSLKLGKFGAFIGCSAYPECRFTRPLTTGGEGEEEVREGPKELGNDPESG
LPVTLRKGPYGHYVQLGDETTLKAEPAPVPEKGKKAPKTAKAVKAPKPKRVSLYKGLEPA
GVTLDIACRLLALPRLVGTHPETGKSISAGVGRFGPYVVHDGVYKSLAKDDDVLVIGMNR
AMELLSQAKGRGGSGPLKTLGEHEGKPVTLHEGRYGPYVSRDGVHATLPKDSSIETVTLE
AALALIAAKAAKGPAKPVRGRKAAAPKAEAAPKPAAAKKAPAKKKAPTKKKVAAKG