Protein Info for GFF1540 in Methylophilus sp. DMC18

Annotation: DNA topoisomerase 1

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 PF01751: Toprim" amino acids 4 to 116 (113 residues), 76.5 bits, see alignment E=2.9e-25 TIGR01051: DNA topoisomerase I" amino acids 4 to 623 (620 residues), 796.4 bits, see alignment E=1.4e-243 PF01131: Topoisom_bac" amino acids 131 to 561 (431 residues), 432.7 bits, see alignment E=3.2e-133 PF01396: Zn_ribbon_Top1" amino acids 587 to 625 (39 residues), 41.1 bits, see alignment 2.4e-14 PF13368: Toprim_C_rpt" amino acids 641 to 700 (60 residues), 31.6 bits, see alignment 2.5e-11 amino acids 703 to 751 (49 residues), 68.2 bits, see alignment 9.1e-23 amino acids 763 to 818 (56 residues), 69.5 bits, see alignment 3.7e-23

Best Hits

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 82% identity to mmb:Mmol_0289)

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

Find the best match in UniProt

Protein Sequence (850 amino acids)

>GFF1540 DNA topoisomerase 1 (Methylophilus sp. DMC18)
MSKLLIVESPSKAKTLKKYLGGDFEVLASYGHVRDLIPKNGAVDPSQQFAMKYGIIDRNS
KHVDAIAKAVKNADSIYLATDPDREGEAISWHIAEILAEKKLIKNKLLKRVEFNEITQTA
VKYAIDHPRDISMDLVNAQQARRALDYLVGFNLSPLLWKKIRRGLSAGRVQSPALRLIVE
RELEIEAFSSQEYWSIHMGALKHAHGFEAKLVQLNGVKVEQFTVINHDQQADIVGKLLLA
SAGKTTVTRVEKKQRSRSPAAPFTTSTLQQEAVRKLGFTTSRAMRVAQQLYEGVDVGSGT
VGLITYMRTDSFSLATEAVMQIRDYVKKHFDADYLPKAPIMYKTKAKNAQEAHEAIRPTD
ITRTPASVRQYLNDEQFKLYEMIWKRTLACQMTQAKYDAVSVDLAVGSEANLFRASGQTL
VFPGFIAVYMEGKDDDKDDEDAEAKLPHLETGEVLNVERIYGEQHFTEPPPRYSEASLVK
ALEEYGIGRPSTYASIISTLQDREYVLLDKKRFTPTDVGRVVNKFLTEHFTQYVDYDFTA
KLENELDEIAEGNLDWVPVMDKFWQGFNQQIQVKADVERPGNELIDEQCPKCGRQLQKQL
SRYGSFIGCTGYNATPKCDYKRSLDGETNAAAEPVVIGQDTETQKDIYLMNGPYGPYLQV
GQPVEGEKKKPKRVSIPKEIPLSQINIDTAHMLLSLPRDLGAHPETGKKIVANIGRFGPY
VNHDGKFKSIPKTESVFSITLEGAVALLAAAGGPAPLADLGAHPSGEGRIEVFSGRYGPY
VQHSGIRATLPKSVTPEELTVEQALELLAEKAAKDGGTKTGKKTTAKKAPAKKTTTKTTT
SKRTKKTEAE