Secondary Evidence: Yamagishi,J., Yoshida,H., Yamayoshi,M. and Nakamura,S. Nalidixic acid-resistant mutations of the gyrB gene of Escherichia coli Mol. Gen. Genet. 204 (3), 367-373 (1986) Medline: 87014111
Adachi,T., Mizuuchi,M., Robinson,E.A., Appella,E., O'Dea,M.H., Gellert,M. and Mizuuchi,K. DNA sequence of the E. coli gyrB gene: application of a new sequencing strategy Nucleic Acids Res. 15 (2), 771-784 (1987) Medline: 87146392
Funatsuki,K., Tanaka,R., Inagaki,S., Konno,H., Katoh,K. and Nakamura,H. acrB mutation located at carboxyl-terminal region of gyrase B subunit reduces DNA binding of DNA gyrase J. Biol. Chem. 272 (20), 13302-13308 (1997) Medline: 97294746
Adachi,T., Mizuuchi,K., Menzel,R. and Gellert,M. DNA sequence and transcription of the region upstream of the E. coli gyrB gene Nucleic Acids Res. 12 (16), 6389-6395 (1984) Medline: 84297235
Comment: From Genbank:[gi:1170145] DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes the interconversion of other topological isomers of double-stranded DNA rings, including catenanes and knotted rings.
Blast Summary:PSI-Blast Search Matches in gapped BLAST to DNA gyrase subunit B. Residues 1-810 are 71% similar to this enzyme from Haemophilus influenzae Rd (1170145|) and residues 7-810 are 70% similar to this enzyme from E.coli (121888|).
HD1643 is similar to DNA gyrase subunit B proteins from C. trachomatis (CT190 & CT661), C. pneumoniae (CPn0275 & CPn0715), T. pallidum (TP1006), M. pneumoniae (MP0151), U. urealyticum (UU081), and M. genitalium (MG003). It is also similar to topoisomerase IV subunit B proteins from U. urealyticum (UU466), M. genitalium (MG203), and M. pneumoniae (MP0032).
COGS Summary:COGS Search BeTs to 14 clades of COG0187
COG name: DNA gyrase (topoisomerase II) B subunit
Functional Class: L
The phylogenetic pattern of COG0187 is a---yqvCEBrHujGPOlINX
Number of proteins in this genome belonging to this COG is 2
Blocks Summary:Blocks Search ***** IPB001241 (DNA topoisomerase II family) with a combined E-value of 2.3e-149. IPB001241A 15-36 IPB001241B 114-132 IPB001241C 169-181 IPB001241D 273-286 IPB001241E 321-347 IPB001241F 426-474 IPB001241G 495-521 IPB001241H 744-767
ProDom Summary:Protein Domain Search Residues 368-482 are 66% similar to a (TOPOISOMERASE ATP-BINDING DNA SUBUNIT GYRASE DNA-BINDING) protein domain (PD000714) which is seen in GYRB_BUCAI.
Residues 139-210 are 51% similar to a (TOPOISOMERASE SUBUNIT ATP-BINDING DNA GYRASE IV COMPLETE) protein domain (PD242130) which is seen in Q9PHD9_XYLFA.
Residues 484-556 are 89% similar to a (TOPOISOMERASE SUBUNIT ATP-BINDING DNA GYRASE PROTEOME IV) protein domain (PD000616) which is seen in Q9CKX5_PASMU.
Residues 185-236 are 51% similar to a (GYRASE DNA ATP-BINDING TOPOISOMERASE) protein domain (PD412132) which is seen in Q59957_STRPN.
Residues 561-732 are 50% similar to a (GYRASE SUBUNIT DNA ISOMERASE) protein domain (PD013226) which is seen in Q9CKX5_PASMU.
Residues 40-137 are 59% similar to a (TOPOISOMERASE SUBUNIT ATP-BINDING GYRASE) protein domain (PD404171) which is seen in GYRB_HALSQ.
Residues 735-800 are 80% similar to a (TOPOISOMERASE SUBUNIT ATP-BINDING DNA) protein domain (PD149633) which is seen in GYRB_ECOLI.
Residues 488-550 are 42% similar to a (TOPOISOMERASE II DNA-BINDING ATP-BINDING NUCLEAR ISOZYME) protein domain (PD335861) which is seen in TP2B_CHICK.
Residues 371-422 are 57% similar to a (GYRASE DNA ISOMERASE ATP-BINDING) protein domain (PD336367) which is seen in Q9CKX5_PASMU.
Residues 588-741 are 26% similar to a (GYRASE B ATP-BINDING SUBUNIT) protein domain (PD358158) which is seen in GYRB_BUCAI.
Residues 246-368 are 76% similar to a (TOPOISOMERASE SUBUNIT ATP-BINDING DNA) protein domain (PD001260) which is seen in GYRB_ECOLI.
Residues 588-719 are 31% similar to a (COMPLETE ORF MITOCHONDRION PROTEOME) protein domain (PD000146) which is seen in GYRB_BUCAP.
Residues 40-220 are 77% similar to a (TOPOISOMERASE ATP-BINDING DNA SUBUNIT GYRASE II) protein domain (PD000740) which is seen in GYRB_HAEIN.
HD1643 is paralogously related to HD0870 (1e-106).
Pfam Summary:Pfam Search Residues 36 to 179 (E-value = 2e-33) place HD1643 in the HATPase_c family which is described as Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase (PF02518) Residues 226 to 398 (E-value = 5.2e-85) place HD1643 in the DNA_gyraseB family which is described as DNA gyrase B (PF00204) Residues 425 to 537 (E-value = 4e-07) place HD1643 in the Toprim family which is described as Toprim domain (PF01751) Residues 734 to 800 (E-value = 8.4e-48) place HD1643 in the DNA_gyraseB_C family which is described as DNA gyrase B subunit, carboxyl terminus (PF00986)
PDB Hit: pdb|1EI1|A Chain A, Dimerization Of E. Coli Dna Gyrase B Provid... 583 2e-167 pdb|1AJ6| Novobiocin-Resistant Mutant (R136h) Of The N-Termi... 349 9e-097 pdb|1BJT| Topoisomerase Ii Residues 409 - 1201 >gi|1633273|p... 65 4e-011