Protein Info for MIT1002_00004 in Alteromonas macleodii MIT1002

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 806 TIGR01059: DNA gyrase, B subunit" amino acids 7 to 806 (800 residues), 1026.5 bits, see alignment E=0 PF02518: HATPase_c" amino acids 34 to 172 (139 residues), 62.1 bits, see alignment E=1.9e-20 PF00204: DNA_gyraseB" amino acids 222 to 392 (171 residues), 208.9 bits, see alignment E=1.1e-65 PF01751: Toprim" amino acids 421 to 533 (113 residues), 69.1 bits, see alignment E=9.4e-23 PF21249: GyrB_hook" amino acids 535 to 563 (29 residues), 56.6 bits, see alignment (E = 4.6e-19) PF18053: GyrB_insert" amino acids 566 to 732 (167 residues), 179.5 bits, see alignment E=1.6e-56 PF00986: DNA_gyraseB_C" amino acids 736 to 795 (60 residues), 108.3 bits, see alignment 5e-35

Best Hits

Swiss-Prot: 75% identical to GYRB_VIBCH: DNA gyrase subunit B (gyrB) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K02470, DNA gyrase subunit B [EC: 5.99.1.3] (inferred from 98% identity to amc:MADE_00006)

MetaCyc: 75% 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 (806 amino acids)

>MIT1002_00004 DNA gyrase subunit B (Alteromonas macleodii MIT1002)
MSAENNYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNSIDEALAGHCSE
ITVLIHSDGSVSVSDDGRGIPTEMHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGV
GVSVVNALSSRLKLRIRRGGKAHEQEYHHGVPQAPLAVTGDTDKTGTMIRFWPSSDTFTD
TLYHYDILAKRLRELSFLNSGVSIRLKDERDGKEDHFMYEGGIKAFVEYLNEKKTPVHQK
VFHFSSEQEDGIAVEVAMQWNDSFQENVFCFTNNIPQRDGGTHLAGFRGALTRTLNNYME
KEGLNKKAKTNASGDDAREGLTAVISVKVPDPKFSSQTKDKLVSSEVRPAVESAMNEKLA
EFLLENPAESKIIAGKIIDAARAREAARKAREMTRRKGALDLAGLPGKLADCQEKDPALS
ELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGI
GRDEYDPEKLRYHSIIIMTDADVDGSHIRTLLLTFFYRQMPEIIERGYVYIAQPPLYKVK
KGKQEQYLKDDDALTNYLTSIAIDGASLHTSDEDPGISGVGLENLVKQYQSVEKMIARMK
RLMPASILYRMLYTPTLNLEDLKDESALEHVAKHFVEQLTERENDGATYRYEIRTDAELS
EYYITIIMRMHGIDYEYIIDHEFIESSEYQRLKELNLAINDMMGKDAYIQRGERRQPVES
FKEALEWLMNEAKRGQYIQRYKGLGEMNPEQLWETTMDPESRRMLQVTIEDAIGCDQLFT
TLMGDQVEPRREFIEANALKVENLDV