Protein Info for LRK54_RS08470 in Rhodanobacter denitrificans FW104-10B01

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 810 TIGR01059: DNA gyrase, B subunit" amino acids 10 to 810 (801 residues), 998.4 bits, see alignment E=7.5e-305 PF02518: HATPase_c" amino acids 37 to 141 (105 residues), 61.9 bits, see alignment E=2.3e-20 PF00204: DNA_gyraseB" amino acids 227 to 396 (170 residues), 203.8 bits, see alignment E=4.4e-64 PF01751: Toprim" amino acids 425 to 535 (111 residues), 66.3 bits, see alignment E=7.1e-22 PF21249: GyrB_hook" amino acids 539 to 566 (28 residues), 42.7 bits, see alignment (E = 1e-14) PF18053: GyrB_insert" amino acids 570 to 736 (167 residues), 152.6 bits, see alignment E=2.9e-48 PF00986: DNA_gyraseB_C" amino acids 738 to 799 (62 residues), 103.4 bits, see alignment 1.8e-33

Best Hits

Swiss-Prot: 66% identical to GYRB_PSEAE: DNA gyrase subunit B (gyrB) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K02470, DNA gyrase subunit B [EC: 5.99.1.3] (inferred from 69% identity to xfa:XF0005)

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 5.99.1.3

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 (810 amino acids)

>LRK54_RS08470 DNA topoisomerase (ATP-hydrolyzing) subunit B (Rhodanobacter denitrificans FW104-10B01)
MNESNNESHYDSSNIKVLKGLEAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGY
CDKVVVTILDDGSVSVSDNGRGIPVDIHPEEGRSTAEVVMTVLHAGGKFDANSYKVSGGL
HGVGVSVVNALSDHLWLTIHRDGHEYLQEYALGEPLYPLKEVGPSTKRGTLVRFLPSPAT
FTNNIDFHYEILAKRLRELAFLNSGVTIELKDDRGEGRSDTFAYQGGIRSFVQHLAQLKT
ALHPNVISLSAEQDGIVVEVAMQWTDSYQETMFCFTNNIPQRDGGTHLTGFRAALTRSLQ
NYIEKEGLAKTAKVALSGDDMREGMIAVLSVKVPDPKFSSQTKDKLVSSEVKTVVEQVVN
EKLGEFLLEHPNEAKAIASKVVDAARAREAARKAREMTRRKGALDIAGLPGKLADCQEKD
PALCELFLVEGDSAGGSAKQGRNRKTQAVLPLKGKILNVEKARFDRMLASAEVGTLITAL
GTGIGKEEYNPDKLRYHRIILMTDADVDGSHIRTLLLTFFYRQMPELIERGHIYIGLPPL
YKVKQGKQELYIKDDTALNDYLISSAVDNAALTYSPDAPPITGEALEKLLRGYQHALDQI
AKLAHRFDAAVLNALLEHPPITPALWSDATLMQTWLDGATRRLAASGLGKPHYRMSLRPA
HGEQTAAIEVVKEQHGLSHTWLLPQPFFASAEFRPLLAISQQIAGMIQPDAVVRRGNASR
GVLSFLEARGWLLEEAKKGRSIQRFKGLGEMNPEQLWDTTVNPDTRRMLQVGIEDAFAAD
QMFSMLMGEAVEPRRDFIEANALKVANLDI