Protein Info for IAI46_00020 in Serratia liquefaciens MT49

Annotation: DNA topoisomerase (ATP-hydrolyzing) 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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 804 TIGR01059: DNA gyrase, B subunit" amino acids 5 to 804 (800 residues), 1033.4 bits, see alignment E=0 PF02518: HATPase_c" amino acids 32 to 172 (141 residues), 67.3 bits, see alignment E=4.7e-22 PF00204: DNA_gyraseB" amino acids 221 to 390 (170 residues), 203.8 bits, see alignment E=4.3e-64 PF01751: Toprim" amino acids 419 to 531 (113 residues), 66.5 bits, see alignment E=5.7e-22 PF21249: GyrB_hook" amino acids 533 to 561 (29 residues), 65.7 bits, see alignment (E = 6.4e-22) PF18053: GyrB_insert" amino acids 564 to 729 (166 residues), 174.9 bits, see alignment E=4.2e-55 PF00986: DNA_gyraseB_C" amino acids 733 to 793 (61 residues), 106.5 bits, see alignment 1.9e-34

Best Hits

Swiss-Prot: 88% identical to GYRB_ECOLI: DNA gyrase subunit B (gyrB) from Escherichia coli (strain K12)

KEGG orthology group: K02470, DNA gyrase subunit B [EC: 5.99.1.3] (inferred from 88% identity to ecc:c4621)

MetaCyc: 88% identical to DNA gyrase subunit B (Escherichia coli K-12 substr. MG1655)
5.99.1.3-RXN [EC: 5.6.2.2]

Predicted SEED Role

"DNA gyrase subunit B (EC 5.99.1.3)" in subsystem DNA topoisomerases, Type II, ATP-dependent or Resistance to fluoroquinolones (EC 5.99.1.3)

Isozymes

Compare fitness of predicted isozymes for: 5.99.1.3

Use Curated BLAST to search for 5.6.2.2 or 5.99.1.3

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

Find the best match in UniProt

Protein Sequence (804 amino acids)

>IAI46_00020 DNA topoisomerase (ATP-hydrolyzing) subunit B (Serratia liquefaciens MT49)
MSNSYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCSDIQ
VTIHADNSVSVQDDGRGIPTGIHEEEGVSAAQVIMTVLHAGGKFDDNSYKVSGGLHGVGV
SVVNALSEKLELVIRREGKVHEQTYAMGEPLSPLKVVGETDQTGTTVRFWPSYETFTNNT
EFEYDILAKRLRELSFLNSGVSIRLKDKRTDKEDHFHYEGGIKAFVEYLNKNKTPIHPNV
FYFSTVKDDIGVEVALQWNDGFQENIYCFTNNIPQRDGGTHLVGFRTAMTRTLNSYMDKE
GYSKKAKISATGDDAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKTAVETLMNEKLVDY
LMENPGDAKIVVGKIIDAARAREAARKAREMTRRKGALDLAGLPGKLADCQERDPALSEL
YLVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGR
DEYNPDKLRYHSIIIMTDADVDGSHIRTLLLTFFYRQMPEIIERGHVFIAQPPLYKVKKG
KQEQYIKDDEAMDQYQIAIAMDGATLHTNASAPALGGEQLEKLVAEHYSVQKLIGRMERR
YPRALLNNLIYQPTLQEEDLSDQSKVKTWIDSLVKLLNDKEQHGSSYDSVIFENRERQMF
EPVLRIRTHGVDTDYALDFDFIHGGEYRKICVLGEKLRGLIEEGAFIERGERRQPIESFE
QALEWLVKESRRGLAVQRYKGLGEMNPEQLWETTMDPESRRMLRVTVKDAIAADQLFTTL
MGDAVEPRRAFIEENALKAANIDI