Protein Info for PGA1_c06220 in Phaeobacter inhibens DSM 17395

Annotation: DNA topoisomerase TopA

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 PF01751: Toprim" amino acids 3 to 115 (113 residues), 66.3 bits, see alignment E=4.6e-22 TIGR01051: DNA topoisomerase I" amino acids 4 to 648 (645 residues), 702.4 bits, see alignment E=3.9e-215 PF01131: Topoisom_bac" amino acids 133 to 568 (436 residues), 396.3 bits, see alignment E=3.5e-122 PF01396: Zn_ribbon_Top1" amino acids 614 to 648 (35 residues), 52.6 bits, see alignment (E = 6.3e-18) PF13368: Toprim_C_rpt" amino acids 663 to 731 (69 residues), 35 bits, see alignment 2.2e-12 amino acids 730 to 790 (61 residues), 56 bits, see alignment 6.2e-19 amino acids 804 to 858 (55 residues), 75.7 bits, see alignment 4.4e-25

Best Hits

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 87% identity to sit:TM1040_2339)

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)

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 I7EUH4 at UniProt or InterPro

Protein Sequence (900 amino acids)

>PGA1_c06220 DNA topoisomerase TopA (Phaeobacter inhibens DSM 17395)
MPVVVVESPAKAKTINKYLGSDYTVLASYGHVRDLPAKNGSVEPDDDFAMTWEVGADSRK
HVKAIADALKDDNALILATDPDREGEAISWHLQEALTKRRSIKKDTAVSRVTFNAITKEA
VTEAMKNPRQVDLPLVEAYLARRALDYLVGFNLSPVLWRKLPGARSAGRVQSVCLRLIVE
REMEIEAFKPQEYWSVKASLATPRGQEFEARLTVLGGDKLDKYALANSTAAELAVQAVAS
RALTVQSVEAKPASRNPSAPFMTSTLQQEASRKFGMGAKQCMNAAQRLYEAGYITYMRTD
GIDMAPEAVQEARAEIANRYGAEYVPGSPRIYKNKAKNAQEAHECIRPTEMGRDAKSLKV
SEDDQRKLYDLIWKRTLACQMEGARLERTTVDIGSNDGQVVLRATGQVMLFDGFLRVYEE
GRDDVVDDDDKRLPQIMQGESLKFAASLAAQAEKADTGGAILSDDKAVLGLQHHTQPPPR
FTEATLVKRMEELGIGRPSTYASVITTIQDREYVRKDKNRLFPEDKGRIVTIFLLNFFRT
YVGYEFTANLEGELDDVSAGDRDYKDLLSRFWRDFSAAISETSDLRITEVLDVLDDALAP
QLYPPREDGVDPRVCPKCGAGQLHLKTSRTGGFVGCGNYPECNYTRPISGEGAEGYERIL
GEDDGDEIHLKSGRFGPYVQRGEATPENKKPPRSSLPKQGKDFLPGWGPNEVTLEQAVTL
LTLPREIGQHPEGGAIQANLGRFGPYIAHQKPDEEKPVYVNLKETLDVFEIGMNRAVEML
AEKRANPGRGRRAAAKALKELGDHPESGGAISIMDGRYGPYVKWEKVNATLPKDVEPKDV
TVEMAVQLITEKAGKSGAKKKAPAKKAAPKKAAAKKTAAKKPAAKKPAAKKKAETSSDDG