Protein Info for DVU3389 in Desulfovibrio vulgaris Hildenborough JW710

Name: topA
Annotation: DNA topoisomerase I (TIGR)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 760 PF01751: Toprim" amino acids 5 to 113 (109 residues), 81.3 bits, see alignment E=7.2e-27 TIGR01051: DNA topoisomerase I" amino acids 5 to 616 (612 residues), 774.7 bits, see alignment E=5.3e-237 PF01131: Topoisom_bac" amino acids 128 to 554 (427 residues), 415.7 bits, see alignment E=3.4e-128 PF01396: Zn_ribbon_Top1" amino acids 583 to 618 (36 residues), 49 bits, see alignment (E = 6.1e-17) amino acids 638 to 674 (37 residues), 51.6 bits, see alignment 9.3e-18 amino acids 680 to 715 (36 residues), 38 bits, see alignment (E = 1.8e-13) amino acids 722 to 756 (35 residues), 15.1 bits, see alignment (E = 2.4e-06)

Best Hits

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 100% identity to dvu:DVU3389)

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 Q725N5 at UniProt or InterPro

Protein Sequence (760 amino acids)

>DVU3389 DNA topoisomerase I (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MGKDLIIVESPAKVKTIKKFLGGKYVVQASVGHVRDLPTNEIGVDEANNFAPQYRVIDGK
QKVVDTLREAAAKADTVYLAPDPDREGEAIAWHVAALIEGKADNIKRIQFNEITARAVRE
ALENPRDLNRALFDAQQARRVLDRLVGYKLSPLLWKKVKRGISAGRVQSVALRLIVDRES
ERRAFTPEEYWLFRAMFAKNVPGATPTSPDPQYAPFKAELAKIDGKKAHVADADAANALE
DAMRGKPFVITAVERKKRERQPQPPFITSTLQQAANQRLGYSAKRTMNIAQRLYEGVELG
EMGTVALITYMRTDSVRVSDEARDAARAFVTETWGADFCPAKPRQFKTKGSAQDAHEAVR
PVDVNVTPDSVKHLLPPDQFQLYRLVWSRFVASQMAPARFDDTTVAIACGPAEWRAKGER
MLFPGFLAAMPQKEEGDAELPPLQEGETLHPVSVEKEQKFTQPPARYTEASLVRELEERG
IGRPSTYASIISTLIDRDYTRLEDKHFVPTDLGATVCDLLARHFTTLMDVGFTAQMEDSL
DKVAEGGLDWVELLSRFSADFNPTLESAAKAMETVKGGLPTDVTCPECGKPVVVKFGKAG
PFLACTAYPDCKFTSNFSRDEKGDIVIEQRAREELEAVGTCPECGKDLVVKKARTGSRFI
ACTGYPDCRHTEPFSTGIACPREGCDGQLVEKSSKRGKIFYSCNRFPKCDYALWDWPVPG
PCPVCGSPLLVKKSTRAKGLHIACPEKTCRYTQELPDDEG