Protein Info for GFF4113 in Sphingobium sp. HT1-2

Annotation: DNA gyrase subunit B (EC 5.99.1.3)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 838 TIGR01059: DNA gyrase, B subunit" amino acids 17 to 838 (822 residues), 963 bits, see alignment E=3.7e-294 PF02518: HATPase_c" amino acids 44 to 187 (144 residues), 59.8 bits, see alignment E=8.7e-20 PF00204: DNA_gyraseB" amino acids 248 to 417 (170 residues), 193 bits, see alignment E=7.7e-61 PF01751: Toprim" amino acids 446 to 557 (112 residues), 64.9 bits, see alignment E=1.6e-21 PF00986: DNA_gyraseB_C" amino acids 766 to 827 (62 residues), 102.5 bits, see alignment 2.8e-33

Best Hits

KEGG orthology group: K02470, DNA gyrase subunit B [EC: 5.99.1.3] (inferred from 89% identity to sjp:SJA_C1-00470)

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)

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 (838 amino acids)

>GFF4113 DNA gyrase subunit B (EC 5.99.1.3) (Sphingobium sp. HT1-2)
MLGMSDEQQNSPNSNEYGADSIKVLKGLDAVRKRPGMYIGDTDDGSGLHHMVFEVSDNAI
DEALAGHCDRIVITLNPDNSVSVEDNGRGIPTGIHKEEGVSAAEVIMTQLHAGGKFENTS
DDNAYKVSGGLHGVGVSVVNALSEWLDLNIWRDGKEHWMRFAYGDATAPLKVIGDAPEGK
KGTRVTFLASTEKVPGDGGTFKNQTEYDFDKLEHRYRELAFLNSGVRLFLVDARHEEKKE
VELYYEGGIAAFVKYLDRNKNALMPDPIAIAGTRDDVTIDVALEWNDSYYENVLCFTNNI
PQRDGGTHLAAFRAALTRTLNSYAEKTGLLKKEKVSLTGEDMREGLTAIVSVKLPDPKFS
SQTKDKLVSSEVRQPLESLMADKMAEWLEENPGHGKMIVQKVIDAAAAREAAKRARELTR
RKGAMDIASLPGKLADCQERDPAKSELFLVEGDSAGGSAKQGRNRHNQAILPLKGKILNV
ERARFDKMLSSKEVGTLIQAMGTGIRDDFNLDKLRYHKIVIMTDADVDGAHIRTLLLTFF
YRQMPQIIEAGHLFIAQPPLYKASRGRSEVYLKDEAALEQYLVDNGVDTMALETTGGART
GDDLRSLIDHARRMRAVMRYVPRRYDPAIIEALGLTGALDPELSEAQLAERLAMAVAWIA
SHDPEGKWTGRIAEGGGFHFERLWRGVTDHHVIEHGFLGSAEARKLHGTASEEAESYAKG
SRLVSAKAVAAQDELGEDELPAVSAKGVNISRPSELLEAILSAGRKGLSIQRYKGLGEMN
AEQLWETTLDPDNRSMLRVEVEQADVADEIFTKLMGDVVEPRREFIQDNALNVANLDV