Protein Info for Xcc-8004.4752.1 in Xanthomonas campestris pv. campestris strain 8004

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 831 TIGR01051: DNA topoisomerase I" amino acids 5 to 618 (614 residues), 741.2 bits, see alignment E=7.3e-227 PF01751: Toprim" amino acids 5 to 117 (113 residues), 75.8 bits, see alignment E=3.8e-25 PF01131: Topoisom_bac" amino acids 133 to 562 (430 residues), 433.4 bits, see alignment E=1.5e-133 PF13368: Toprim_C_rpt" amino acids 594 to 652 (59 residues), 45.9 bits, see alignment 6.7e-16 amino acids 657 to 702 (46 residues), 44 bits, see alignment 2.7e-15 amino acids 714 to 759 (46 residues), 53.6 bits, see alignment 2.7e-18

Best Hits

Swiss-Prot: 82% identical to TOP1_XYLFA: DNA topoisomerase 1 (topA) from Xylella fastidiosa (strain 9a5c)

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 100% identity to xca:xccb100_3936)

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 5.99.1.2

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 A0A0H2XDF4 at UniProt or InterPro

Protein Sequence (831 amino acids)

>Xcc-8004.4752.1 DNA topoisomerase I (EC 5.99.1.2) (Xanthomonas campestris pv. campestris strain 8004)
MPKHLLIVESPAKAKTINKYLGKDFTVLASYGHVRDLVPKEGAVDPDNGFAMRYDLIEKN
EKHVEAIARAAKSADDIYLATDPDREGEAISWHIAEILKERGLLKDKTMQRVVFTEITPR
AIKEAMLKPRAIAADLVDAQQARRALDYLVGFNLSPVLWRKVQRGLSAGRVQSPALRMIV
EREEEIEAFIAREYWSIDAHCRHPSQPFNARLIKLDGQKFEQFTVTDGDTAEAARLRIQQ
AAQGVLHVTDVASKERKRRPAPPFTTSTLQQEASRKLGFTTRKTMQVAQKLYEGVALGDE
GSVGLISYMRTDSVNLSQDALAEIRDVIARDFGTASLPDQPNAYTTKSKNAQEAHEAVRP
TSALRTPAQVARFLSDDERRLYELIWRRAVACQMIPATLNTVSVDLSAGSEHVFRASGTT
VVVAGFLAVYEEGKDTKSSEDEDEGRKLPLMKAGDNIPLDRIVTDQHFTQPPPRFTEAAL
VKALEEYGIGRPSTYASIIQTLQFRKYVEMEGRSFRPTDVGRAVSKFLSGHFTRYVDYDF
TANLEDDLDAVSRGEAEWIPLMEKFWGPFKELVEDKKDSLDKTDAGSVRVLGADPVSGKE
VSARIGRFGPMVQIGTVEDEDKPTFASLRPGQSIYSISIEDALELFKMPRALGQDKDQDV
SVGIGRFGPFARRGSVYASLKKEDDPYTIDLARAVFLIEEKEEIARNRVIKEFDGSDIQV
LNGRFGPYISDGKLNGKIPKDREPASLTFEEVQQLLADTGKPVRKGFGAKKATLKKNAVK
DSAKEAKDAAKKTAAVKKVATKTAAKKAPAKKAAKKATKRVVKKAVSKAAG