Protein Info for PGA1_c21350 in Phaeobacter inhibens DSM 17395

Annotation: DNA topoisomerase 4 subunit B

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 50 100 150 200 250 300 350 400 450 500 550 600 652 TIGR01055: DNA topoisomerase IV, B subunit" amino acids 12 to 644 (633 residues), 755.3 bits, see alignment E=2.5e-231 PF02518: HATPase_c" amino acids 39 to 182 (144 residues), 63.2 bits, see alignment E=6.1e-21 PF00204: DNA_gyraseB" amino acids 234 to 406 (173 residues), 148.4 bits, see alignment E=2.9e-47 PF01751: Toprim" amino acids 434 to 541 (108 residues), 57.6 bits, see alignment E=2.4e-19 PF00986: DNA_gyraseB_C" amino acids 578 to 641 (64 residues), 80.7 bits, see alignment E=1.4e-26

Best Hits

Swiss-Prot: 57% identical to PARE_CAUVC: DNA topoisomerase 4 subunit B (parE) from Caulobacter vibrioides (strain ATCC 19089 / CB15)

KEGG orthology group: K02622, topoisomerase IV subunit B [EC: 5.99.1.-] (inferred from 92% identity to sit:TM1040_1740)

Predicted SEED Role

"Topoisomerase IV subunit B (EC 5.99.1.-)" in subsystem DNA topoisomerases, Type II, ATP-dependent or Resistance to fluoroquinolones (EC 5.99.1.-)

Isozymes

Compare fitness of predicted isozymes for: 5.99.1.-

Use Curated BLAST to search for 5.99.1.-

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 I7F0P3 at UniProt or InterPro

Protein Sequence (652 amino acids)

>PGA1_c21350 DNA topoisomerase 4 subunit B (Phaeobacter inhibens DSM 17395)
MADDLLSTPASDTYDASSIEVLEGLEPVRQRPGMYIGGTDERALHHMVAEILDNSMDEAV
AGHANRIEVTLHADYAVTISDNGRGIPIDPHPKFPDKSALEVILCTLHAGGKFSGKAYQT
SGGLHGVGSSVVNALSDSMVVQVAKNKELFEQRFSRGIPQGPVEKIGAAPNKRGTFVTFH
ADEQIFGSHRFKPKRLFTLVRSKAYLFSGVEIRWKSEIDDNETPTEATFHFPGGLKDYLT
EVLGKSSVYAEQPFAGKVEFREKFNAPGYVEWAINWTPSRDGFTQSYCNTVPTPEGGTHV
AGFWAAILKGIKAYGDLVGNKKAASITREDLMAGGCALVSCFIADPAFVGQTKDRLSTEI
AAKMVENSVRDHFDNWLAADTKSAGAILDFLVLRAEERLRRKQEKETQRKSATKKLRLPG
KLTDCTSKDRAGTELFIVEGDSAGGSGKGARNRVNQALLPLKGKILNVLGAASNKIGTNA
EIRDLCEALGVGTGTKFNLDDLRYDKIIIMTDADVDGAHIASLLMTFFFTQMRPLIDGGH
LYLACPPLFRLTQGARRVYCLDEAERDLWLEKGLGGKGKIDVSRFKGLGEMDAKDLKETT
MDPTTRKLIRVTIDEDEPGETGELVEQLMGKKPELRYQYIQENAKFVEELDV