Protein Info for Psest_2651 in Pseudomonas stutzeri RCH2

Annotation: DNA topoisomerase I, bacterial

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 867 PF01751: Toprim" amino acids 5 to 146 (142 residues), 75.7 bits, see alignment E=6.8e-25 TIGR01051: DNA topoisomerase I" amino acids 5 to 635 (631 residues), 835.1 bits, see alignment E=2.6e-255 PF01131: Topoisom_bac" amino acids 162 to 568 (407 residues), 431.1 bits, see alignment E=1.2e-132 PF01396: Zn_ribbon_Top1" amino acids 601 to 624 (24 residues), 19.5 bits, see alignment (E = 1.7e-07) amino acids 711 to 746 (36 residues), 41.1 bits, see alignment (E = 3.1e-14) PF21372: Zn_ribbon_bTOP1" amino acids 653 to 696 (44 residues), 86 bits, see alignment 2.8e-28 PF08272: Zn_Ribbon_Topo" amino acids 758 to 794 (37 residues), 46.7 bits, see alignment (E = 5.2e-16) amino acids 828 to 864 (37 residues), 68.5 bits, see alignment (E = 8.2e-23)

Best Hits

Swiss-Prot: 89% 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 86% identity to avn:Avin_14470)

MetaCyc: 68% 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)

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 L0GMZ7 at UniProt or InterPro

Protein Sequence (867 amino acids)

>Psest_2651 DNA topoisomerase I, bacterial (Pseudomonas stutzeri RCH2)
MGKSLVIVESPAKAKTINKYLGNQYVVKSSIGHIRDLPTSGSANKEPVKRGKAAAAEAPV
LSPKEKAKRQLITRMGVDPEHGWKAKYEILPGKEKVIEELRRLAKEADTIYLATDLDREG
EAIAWHLRESIGGDDSRYKRVVFNEITKKAIQEAFSKPGDLDLNRVNAQQARRFLDRVVG
YMVSPLLWAKIARGLSAGRVQSVAVKLVVEREREIRAFVPEEYWEVHADLASAQQAKVRF
EVARENGEAFKPLNEAQANAALEKLKGAKYSVSKREDKPTSSKPSAPFITSTLQQAASNR
LGFGVKKTMMMAQRLYEAGYITYMRTDSTNLSADAIGMVRGFIEGEFGDKYLPEKPNVYS
SKEGAQEAHEAIRPSDVNLRPTQLSGMERDAERLYELIWRQFVACQMPPAQYLSTSVTVA
AGDFELRAKGRILKFDGYTKVMPQQSKAGEDDVLPEMNKGDDMKLLKLDPSQHFTKPPAR
YSEASLVKEMEKRGIGRPSTYAAIISTIQDRGYVSLHNRRFYSEKMGDIVTERLSESFNN
LMDYGFTAGMEEHLDDVAQGERDWKHVLDEFYGDFRKKLEVAEASENGMRANQPTLTDIP
CKVCGRPMMIRTASTGVFLGCSGYSLPPKERCKSTVNLVPGDEIAADDEGESESRVLLGK
HRCPICSTAMDAYLLDETQKLHICGNNPDCSGYEIEKGQYRIKGYEGPSLECDKCGSEMQ
LKTGRFGKFFGCTNAECKNTRKLLKNGEAAPPKMDAVKMPELKCEKVDDTYVLRDGASGL
FLAASQFPKNRETRAPLVRELIPHKDEIDPKYHFLLDAPQKDPEGRFAVIRFSRKTKEQY
VQTEVDGKPTGWKAFYDGGKWKVEDKR