Protein Info for GFF1334 in Xanthobacter sp. DMC5

Annotation: DNA gyrase 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 50 100 150 200 250 300 350 400 450 500 550 600 650 694 TIGR01055: DNA topoisomerase IV, B subunit" amino acids 50 to 684 (635 residues), 793.8 bits, see alignment E=5.8e-243 PF02518: HATPase_c" amino acids 77 to 220 (144 residues), 60.5 bits, see alignment E=4.1e-20 PF00204: DNA_gyraseB" amino acids 276 to 446 (171 residues), 155.4 bits, see alignment E=2.1e-49 PF01751: Toprim" amino acids 474 to 578 (105 residues), 65.4 bits, see alignment E=8.9e-22 PF00986: DNA_gyraseB_C" amino acids 618 to 680 (63 residues), 83.3 bits, see alignment E=2.2e-27

Best Hits

Swiss-Prot: 66% identical to PARE_BARBK: DNA topoisomerase 4 subunit B (parE) from Bartonella bacilliformis (strain ATCC 35685 / NCTC 12138 / KC583)

KEGG orthology group: K02622, topoisomerase IV subunit B [EC: 5.99.1.-] (inferred from 90% identity to xau:Xaut_4757)

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

Find the best match in UniProt

Protein Sequence (694 amino acids)

>GFF1334 DNA gyrase subunit B (Xanthobacter sp. DMC5)
MSNTDNSDSDNSDDLFAARPRGASKSPARETTAKESARGKAAVVPAMAGDYTAAHIEVLE
GLEPVRRRPGMYIGGTDSKALHHLFAEVVDNSMDEAVAGHATFIEVQLGADGYLTVSDNG
RGIPVEEHPKFPGKSALEVIMTTLHAGGKFDSKVYETSGGLHGVGVSVVNALSDDLEVEV
ARNQTLYRQSFSKGVPQGPLKEVGRITNRRGTRVRFHPDPEIFGEGAHFEPARVFRMARS
KAYLFGGVEIRWSCDPELLKAGENIPEKTVFRFPGGLKDYLAADLEGNTLVHPDIFAGRI
QKTGGHGSVEWAVAWVADADGSISSYCNTIPTPDGGTHENGLRTVLLKGLKDHAERSGQG
KRGAIITGDDVITGCAAMLSVFVREPEFQGQTKDRLATAEAARIVEQALRDPFDHWLAAN
PVQASRLLDHVIDRAEERLRRKQEKEVSRKTAVRKLRLPGKLADCSNTEAAGSEIFIVEG
DSAGGSAKQARDRKTQAVLPLRGKILNVANATRDKLAANQQLADLGQALGCGTLAHYREA
DLRYEKVIIMTDADVDGAHIASLLVTYFFRQMPKLIEEGHLFLAVPPLYRITQGAKTLYA
RDDAHRERLLKKEFSAKGKVDVGRFKGLGEMMPAQLKETTMDPKTRTLQRVSVEDAERAA
TVDLVERLMGNKPEARFAFISERAAFAGEEMLDI