Protein Info for GFF115 in Sphingobium sp. HT1-2

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 860 PF01751: Toprim" amino acids 2 to 114 (113 residues), 81.3 bits, see alignment E=9.8e-27 TIGR01051: DNA topoisomerase I" amino acids 3 to 619 (617 residues), 731 bits, see alignment E=8.9e-224 PF01131: Topoisom_bac" amino acids 129 to 540 (412 residues), 416.9 bits, see alignment E=1.9e-128 PF01396: Zn_ribbon_Top1" amino acids 586 to 620 (35 residues), 49.3 bits, see alignment (E = 6.8e-17) PF13368: Toprim_C_rpt" amino acids 639 to 693 (55 residues), 38.7 bits, see alignment 1.5e-13 amino acids 697 to 751 (55 residues), 51.7 bits, see alignment 1.3e-17 amino acids 765 to 818 (54 residues), 64.8 bits, see alignment 1.1e-21

Best Hits

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 93% identity to sch:Sphch_0773)

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

Find the best match in UniProt

Protein Sequence (860 amino acids)

>GFF115 DNA topoisomerase I (EC 5.99.1.2) (Sphingobium sp. HT1-2)
MQLVIVESPAKAKTIEKYLGGDFHVLASYGHIRDLPPKDGSVDPDNGFAMSWENYGDKGK
QLKAIADEAKKATRLILATDPDREGEAISWHVQEVLRAKKALPQTVDRVTFNAITKAAVL
DAMAKPRALDEDLIDAYRARRALDYLVGFTLSPVLWRKLPGAKSAGRVQSVALRLVVERE
REIESFVPQEYWSISAEMEQGGQGFTARLVRWKGEKIDRLTIGKEGDAMAAKADVEAGRF
TVDKVETKPLTRNPPPPFTTSTLQQEAARKLGFSASHTMRIAQQLYEDGAITYMRTDGVQ
MDGSAISAARKAIAERYDGGYLPEKPRQYQTKAKNAQEAHEAIRPTEFHRDKVGGGDHAR
LYDLIFKRALASQMASARLERTTIDMVDGSGSHTLRATGQVVIFPGFLALYEEGRDDAED
DDSKLLPRLSEGDAPAKKKVSAEQHFTQPPPRYSEASLVKKLEELGIGRPSTYASTLQVL
KDRDYVRVEKNRFFAEESGRLVTAFLERFFERYVSYDFTAGLEDELDEISGGRAQWQEVL
EAFWKDFKPKTAEIMEQKPSDITAELDKFLEPMLFPPKADGSNPRACPLCADGQLSLRGG
RFGAFIACSNYPECKYTRKFGQPGGSDGADTGPEILGQHPETGQDIVKKSGRFGPYIEMG
EGKEAKRGSIPKDLPDGEMTLDWAIKLLSLPREVGLHPETGLPIVANIGRFGPYLLHDGK
YGRLSSTAEIFEVGMNMAVAKLADAANKGGRGGSSREPLKVLGKHPRTEAEIKLMAGRYG
PYVTDGTTNATLPKTIEQDALTLEEAAQLIDARAAAAPAKKGKKAPAKKAAAKKPAAKKE
TGEKKPAAKKSPAKKKAAAE