Protein Info for Psyr_0004 in Pseudomonas syringae pv. syringae B728a ΔmexB

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 805 TIGR01059: DNA gyrase, B subunit" amino acids 7 to 804 (798 residues), 998.7 bits, see alignment E=5.9e-305 PF02518: HATPase_c" amino acids 34 to 173 (140 residues), 62 bits, see alignment E=2.2e-20 PF00204: DNA_gyraseB" amino acids 222 to 391 (170 residues), 193.7 bits, see alignment E=5.6e-61 PF01751: Toprim" amino acids 420 to 532 (113 residues), 65.5 bits, see alignment E=1.2e-21 PF21249: GyrB_hook" amino acids 534 to 562 (29 residues), 60.9 bits, see alignment (E = 2.1e-20) PF18053: GyrB_insert" amino acids 565 to 730 (166 residues), 177.2 bits, see alignment E=8.2e-56 PF00986: DNA_gyraseB_C" amino acids 733 to 794 (62 residues), 105.9 bits, see alignment 2.9e-34

Best Hits

Swiss-Prot: 90% identical to GYRB_PSEPU: DNA gyrase subunit B (gyrB) from Pseudomonas putida

KEGG orthology group: K02470, DNA gyrase subunit B [EC: 5.99.1.3] (inferred from 87% identity to avn:Avin_00040)

MetaCyc: 67% 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

See Q500U4 at UniProt or InterPro

Protein Sequence (805 amino acids)

>Psyr_0004 DNA gyrase subunit B (Pseudomonas syringae pv. syringae B728a ΔmexB)
MSENQTYDSSSIKVLKGLDAVRKRPGMYIGDTDDGSGLHHMVFEVVDNSIDEALAGHCDD
ISIIIHPDESITVRDNGRGIPVDVHKEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGV
GVSVVNALSELLLLTVRRSGKIWEQTYVHGVPQEPMKIVGESDSTGTQIHFKPSAETFKN
IHFSWDILAKRIRELSFLNSGVGIVLKDERSGKEELFKYEGGLRAFVEYLNTNKTPVNEV
FHFNIQRDDGIGVEIALQWNDSFNENLLCFTNNIPQRDGGTHLVGFRSALTRNLNNYIEQ
EGLAKKHKVATTGDDAREGLTAIISVKVPDPKFSSQTKDKLVSSEVKTAVEQEMGKYFSD
FLLENPNEAKAVVGKMIDAARAREAARKAREMTRRKGALDIAGLPGKLADCQEKDPALSE
LYLVEGDSAGGSAKQGRNRRTQAILPLKGKILNVEKARFDKMISSQEVGTLITALGCGIG
REEYNIDKLRYHNIIIMTDADVDGSHIRTLLLTFFFRQLPELIERGYIYIAQPPLYKVKK
GKQEQYIKDDEAMEEYMTQSALEDASLHLSESAPGISGTALEKLVNDFRMVMKTLKRLSR
LYPQELTEHFVYLPPITLEQLSDHEGMQAWLALFDARLRTGEKSGLVYKASLREDRERNV
WLPEVELISHGLSNYVTFNRDFFGSNDYKTVTALGAQISTLLEEGAYVQRGERKKPVNEF
KEALAWLMAESTKRHTIQRYKGLGEMNPDQLWETTMDPSVRRMLKVTIEDAIGADQIFNT
LMGDAVEPRRDFIESNALAVSNLDF