Protein Info for Pf6N2E2_2287 in Pseudomonas fluorescens FW300-N2E2

Annotation: DNA topoisomerase I (EC 5.99.1.2)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 870 TIGR01051: DNA topoisomerase I" amino acids 5 to 639 (635 residues), 821.4 bits, see alignment E=3.9e-251 PF01751: Toprim" amino acids 5 to 149 (145 residues), 75.5 bits, see alignment E=7.8e-25 PF01131: Topoisom_bac" amino acids 164 to 571 (408 residues), 434 bits, see alignment E=1.6e-133 PF01396: zf-C4_Topoisom" amino acids 604 to 627 (24 residues), 19.2 bits, see alignment (E = 2.1e-07) amino acids 714 to 748 (35 residues), 45 bits, see alignment (E = 1.9e-15) PF21372: TOP1_ZnF" amino acids 656 to 699 (44 residues), 86.2 bits, see alignment 2.5e-28 PF08272: Topo_Zn_Ribbon" amino acids 761 to 797 (37 residues), 42.8 bits, see alignment (E = 8.6e-15) amino acids 828 to 867 (40 residues), 71.1 bits, see alignment 1.2e-23

Best Hits

Swiss-Prot: 88% identical to TOP1_PSEAE: DNA topoisomerase 1 (topA) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 84% identity to avn:Avin_14470)

MetaCyc: 67% identical to DNA topoisomerase I (Escherichia coli K-12 substr. MG1655)
5.99.1.2-RXN [EC: 5.6.2.1]

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

Compare fitness of predicted isozymes for: 5.99.1.2

Use Curated BLAST to search for 5.6.2.1 or 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)

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 A0A159ZVF3 at UniProt or InterPro

Protein Sequence (870 amino acids)

>Pf6N2E2_2287 DNA topoisomerase I (EC 5.99.1.2) (Pseudomonas fluorescens FW300-N2E2)
MGKSLVIVESPAKAKTINKYLGNQYVVKSSIGHIRDLPTSGSASASKEPAAKRGKAAAGE
APALSPKDKARKQLVSRMGVDPEHGWKAKYEILPGKEKVIEELRRLAKDADTIYLATDLD
REGEAIAWHLREAIGGDDSRYKRVVFNEITKKAIQEAFSQPGELDIDRVNAQQARRFLDR
VVGYMVSPLLWAKIARGLSAGRVQSVAVKLVVEREREIRAFIPEEYWEVHADLGTAKGAT
VRFDVAREKGEAFKPLNEAQAMAALEKLKASSYSIVKREDKPTSSKPSAPFITSTLQQAA
SNRLGFGVKKTMMMAQRLYEAGYITYMRTDSTNLSADAVAMARTYIESEFGKKYLPDTPN
VYSSKEGAQEAHEAIRPSDANTEPSKLSGMERDAERLYELIWRQFLACQMLPAQYLSTTV
SVGAGDFELRAKGRILKFDGYTRVMPQITKPGDDDVLPDMAQGDVMKLIKLDPTQHFTKP
PARYSEASLVKEMEKRGIGRPSTYAAIISTIQDRGYVALHNRRFYSEKMGDIVTERLSES
FSNLMDYGFTAGMEENLDDVAQGERDWKNVLDEFYGDFKKKLEVAESPDSGMRANQPVMT
DIPCLTCGRPMQIRTASTGVFLGCSGYSLPPKERCKATVNLVPGDEIAADDEGESESLVL
RGKHRCPICSTAMDAYLLDEKRKLHICGNNPDCAGYEIEEGTYRIKGYEGPSLECDKCGS
EMQLKTGRFGKFFGCTNPTCKNTRKLLKSGDAAPPKMDPVKMPELKCEKVNDTYILRDGA
SGLFLAASQFPKNRETRAPLVMEIVPHKDEIDPKYHFLCEAPQKDPDGRPAVIRYSRKTK
EQYVQTEVDGKPTGWKAYYDGGKWTVEDKR