Protein Info for Dshi_1137 in Dinoroseobacter shibae DFL-12

Annotation: DNA topoisomerase I (RefSeq)

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), 70 bits, see alignment E=3.3e-23 TIGR01051: DNA topoisomerase I" amino acids 4 to 448 (445 residues), 554.1 bits, see alignment E=3e-170 PF01131: Topoisom_bac" amino acids 131 to 587 (457 residues), 411.9 bits, see alignment E=6.4e-127 PF01396: zf-C4_Topoisom" amino acids 633 to 668 (36 residues), 45.6 bits, see alignment (E = 9.9e-16) PF13368: Toprim_C_rpt" amino acids 691 to 745 (55 residues), 35.1 bits, see alignment 2.1e-12 amino acids 749 to 805 (57 residues), 57.8 bits, see alignment 1.7e-19 amino acids 824 to 875 (52 residues), 74.1 bits, see alignment 1.4e-24

Best Hits

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 100% identity to dsh:Dshi_1137)

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)

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 A8LHT2 at UniProt or InterPro

Protein Sequence (900 amino acids)

>Dshi_1137 DNA topoisomerase I (RefSeq) (Dinoroseobacter shibae DFL-12)
MPVVVVESPAKAKTINKYLGSDFTVLASYGHVRDLPPKDGSVDPEHGFEMLWEIASDSRK
HVKAIADALKDDDTLILATDPDREGEAISWHLQEALTKRKAIKKSTDVSRVVFNAITKSA
VTEAMKNPRDVDMELVEAYLARRALDYLVGFNLSPVLWRKLPGAKSAGRVQSVCLRLIVE
REMEIEAFDPREYWSVRAVLETPRGQTYEARLTELAGKKLDKFDLATAEAAELAVQAVTS
RKLSVTSVEAKPGTRNPSAPFMTSTLQQEASRKFGFGARQTMSTAQRLYEAGYITYMRTD
GIDMAPEAVTMARDAIKERFGAAYLPDSPRIYKNKAKNAQEAHECIRPTEMSRAPEDLKV
TEPDQRKLYDLIWKRTLASQMAAARLERTTVEIGSPDGQVALRATGQVVVFDGFMKVYTE
GQDEESTAEDERRLPQIGQGDPAPLHKGGMEAAFAKAGSREDDVVEAAPTGGMQQGPGGL
LSENGAVFGQQHFTQPPPRYTEATLVKRMEELGIGRPSTYASIVTTIQDRGYVTKDKNRL
IPEDKGRLVTAFLVNYFRKYVGYDFTADLENQLDEVSAGDRNYKDVLDRFWRDFSAAIAE
TSELRITEVLEKINEVLAPHLFPPREDGKPPRLCPNCEIGQLSMRTARSGGAFIGCSNYP
ECRYTRPFGPPGMEEASGIPPEGKLLGEDGGDEIRVFKGRFGPYVQRGAVTEENKKPPRQ
SIPKSWVPEELELDKAVMLLSLPRQIGLHPDDGVPVWANIGRYGPYLKHADSTSDRGGTN
ANLEDIEEVWTVGMNRAVQLLAEKVASRGGRGAAAKPLRELGEHPEAGGPVNIMKGKYGP
YVKWEKINATIPKETDPEQVTMEMAVQLIEERAAKSGKKAPAKKKAATKKKTAAKKTSAK