HHsearch alignment for GI: 254780182 and conserved domain: TIGR01061

>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit; InterPro: IPR005741 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit A (parC) of topoisomerase IV from Gram positive bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00  E-value=0  Score=1906.90  Aligned_cols=729  Identities=38%  Similarity=0.635  Sum_probs=706.1

Q ss_pred             EEEECHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEHHHHHHHHCCCCCCCHHHHHH
Q ss_conf             66600999998767877799886313754000897367899999998789999981134042556643668870478999
Q gi|254780182|r   16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEVMGKYHPHGNAAIYD   95 (910)
Q Consensus        16 i~~~~~~~~m~~syl~Ya~svI~~RAlPd~rDGlKpv~Rrily~m~~~~~~~~~~~~K~a~ivg~v~gkyHPHGd~siy~   95 (910)
T Consensus         1 ~~~~~Le~v~g~~F~kYaKYIIQDRALPD~RDGLKPVQRRILYaM~~~G~~fdk~YkKSAr~VGev~GkYHPHGDSSiYd   80 (745)
T TIGR01061         1 IINLPLEEVVGESFGKYAKYIIQDRALPDIRDGLKPVQRRILYAMSEDGNTFDKPYKKSARTVGEVIGKYHPHGDSSIYD   80 (745)
T ss_pred             CCCCCHHHHHHCCCCCCCCCEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCHHHH
T ss_conf             97875035440000000251340456665111577035778766532378668870012011102226712898644778


Q ss_pred             HHHHHCCCHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEECCCCCCCCCEECCCCCCCCH
Q ss_conf             99971220111561314788708877697201357899978999999863076840533068988548503432273211
Q gi|254780182|r   96 ALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVL  175 (910)
Q Consensus        96 a~v~maq~~~~r~plidg~GnfGs~dgd~~AA~RYte~rl~~~~~~~l~~i~~~tv~~~~n~D~~~~EP~vlP~~~P~lL  175 (910)
T Consensus        81 AmvRMSQ~WKn~~~lv~mHGNnGSiDGDnaAAMRYTEaRLS~iA~~LL~di~K~~V~F~~NFDDseKEP~vLP~lfPNLL  160 (745)
T TIGR01061        81 AMVRMSQDWKNNLVLVEMHGNNGSIDGDNAAAMRYTEARLSKIASELLKDIDKKTVKFIPNFDDSEKEPTVLPALFPNLL  160 (745)
T ss_pred             HHHHCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             86414746334318998506667889985155432476677999999740477831033687788877742344213456


Q ss_pred             HCCCCCEEEHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCEEEEEEEEE
Q ss_conf             01676101013317898547899999988761877688888863458668874434475889999870120389999886
Q gi|254780182|r  176 VNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSH  255 (910)
Q Consensus       176 ~nG~~GIAvGmaTnippHNl~Ev~~a~~~~i~~p~~~~~eL~~~i~GPDFPTGG~I~~~~~i~~~y~tGrG~i~iR~k~~  255 (910)
T Consensus       161 iNGatGIaAGYATnIpPHn~~Ev~Da~i~rId~P~c~v~~L~e~~kgPDFPTGG~i~~~~~~~~aY~tGkGk~iirak~~  240 (745)
T TIGR01061       161 INGATGIAAGYATNIPPHNLNEVIDALIYRIDHPDCSVDKLMEIVKGPDFPTGGIIQGEDGIKKAYETGKGKFIIRAKIE  240 (745)
T ss_pred             HHHHHHHHCCHHCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCEEECHHHHHHHHHCCCCEEEEEEEEE
T ss_conf             52013320000047788876689999986138988417889854484115887246141547889854981399986425


Q ss_pred             EEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHHHHHCCHHC
Q ss_conf             54336784599992464435289999999999871665014458730374655799994798877899999997610110
Q gi|254780182|r  256 IEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELKRGASADVILNQLYRYTSLQS  335 (910)
Q Consensus       256 ie~~~~~k~~ivItEiPY~vnk~~lie~Ia~lv~~~ki~gI~dirDeSdr~giRivielKr~~~~~~vln~Lyk~T~Lq~  335 (910)
T Consensus       241 ~e~~~ng~~QI~It~IPYE~nKAnlvK~iedi~~d~kv~gi~eVrDeSDr~GlriiI~~Kk~~~~e~v~nyLyK~T~Lqi  320 (745)
T TIGR01061       241 IEVNKNGLNQIVITEIPYETNKANLVKKIEDIIVDKKVAGIEEVRDESDRKGLRIIIELKKDANAEKVLNYLYKKTDLQI  320 (745)
T ss_pred             EEEECCCCCEEEECCCCHHHHHHHHEEEEEEEEECCEEHHHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHCCCCCCEE
T ss_conf             53205882048974574677667640000026764500000100344575755465605452475567875413435438


Q ss_pred             CCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             00000245541663000299999999999999999999999999988877899999987406999999861899789878
Q gi|254780182|r  336 LFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARR  415 (910)
Q Consensus       336 sf~~N~~aL~~g~P~~l~Lk~iL~~fi~hR~evi~rRt~~~L~ka~~R~HILeGL~~Al~nIDeVI~iIR~S~d~~eAk~  415 (910)
T Consensus       321 ~YN~n~vaI~nr~P~lv~L~~yLd~yi~h~~evi~~~~~Ydl~ka~~R~~IveGLik~isilDeiI~~IRas~~k~DAk~  400 (745)
T TIGR01061       321 NYNFNMVAIANRTPILVGLLSYLDAYIKHSKEVIINRSLYDLEKAKKRLEIVEGLIKAISILDEIIKLIRASEDKSDAKE  400 (745)
T ss_pred             EECCCCEEECCCCCEEECHHHHHHHHHHHHHHHEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHH
T ss_conf             64324178404763364401688888723023200246423888987889888899999998789887730245336034


Q ss_pred             HHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf             77631269788999997402211122234452369999999998789999888799999989999999998875304989
Q gi|254780182|r  416 ELMQRSWNASDIKDLIDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILSSRS  495 (910)
Q Consensus       416 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~lSe~QA~AILdMrL~rLt~LE~~kl~~E~~eL~~~I~~l~~IL~s~~  495 (910)
T Consensus       401 ~Li~~--------------------------f~FT~~QAEAIv~LrLY~LTnTDi~~L~~E~~eL~~~~~~l~~~i~~~k  454 (745)
T TIGR01061       401 NLIDK--------------------------FEFTENQAEAIVSLRLYRLTNTDIFELKEEEEELEKKIKSLEEIIASEK  454 (745)
T ss_pred             HHCCC--------------------------CCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             31011--------------------------3777257999999886037320377778789999999999999876578


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCEEECCCC--CCCCCCCCCCCCEEEEEECCC-EECCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             999999998999998405688331001343--453010145678189990797-05233100000233456521100014
Q gi|254780182|r  496 RLLGIIKQELLSVKDELDTPRRTRIVEGLL--DMEDEDCIVREDMVVTVSHLG-YVKRVPLSVYRAQRRGGKGRSGVVMR  572 (910)
Q Consensus       496 ~l~~iI~~EL~eik~kygd~RRT~I~~~~~--~i~~EdlI~~E~vvV~lS~~G-yIKr~~~~~yr~Q~RggkG~~~~~~k  572 (910)
T Consensus       455 ~~~~~lk~~l~~~KK~F~~~R~s~l~~~~~~~~i~~~~li~~~~~~v~itk~GnY~K~~S~~sf~ss~-----~~d~g~~  529 (745)
T TIGR01061       455 ARKKLLKKKLKELKKKFAQERRSKLEDEIEKIKINEDELIEKEDLYVVITKDGNYIKRTSKRSFASSK-----YDDFGLK  529 (745)
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHEECCHHHHHHHCCCEEEEEECCCEEHHHHHHHHHHCC-----CCCCCCC
T ss_conf             99999899999872310575045675116530104678532146407998447630001266762047-----3115775


Q ss_pred             CCCHHEEEEEECCCCEEEEEECCCCEEEEECCCCCCCCCCCCCCCCEEEEE-CCCCCCEEEEEEECCCCCCCCCCEEEEE
Q ss_conf             641010113323777399995489399982000432244456554124545-3655620025663012566687179999
Q gi|254780182|r  573 DEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSPQARGKALINILS-LNQGERITTIMPFPEDESSWNNLYVVFA  651 (910)
Q Consensus       573 e~D~v~~~~~~~t~d~LLfFTs~Gkvy~l~v~~IP~~sr~skG~pi~nll~-l~~~E~I~ail~~~~~~~~~~~~~Lvl~  651 (910)
T Consensus       530 ~~d~l~~~~~~nttd~lL~~Ts~g~~In~pvh~La~~rwkd~g~hls~~~~n~~~~E~iv~v~~~~~fd--v~~~~L~l~  607 (745)
T TIGR01061       530 DDDILFYQTIANTTDKLLIFTSKGNLINLPVHKLADIRWKDLGEHLSNKITNFDENETIVAVEILNEFD--VDEAILVLA  607 (745)
T ss_pred             CCHHHHHHHHHHCCCEEEEEECCCCEEEEEEEECCCCCHHHHHHHHCCHHHHHHCCCCEEEEEEECCCC--CCHHHHHHH
T ss_conf             533453546521225378876166664213031456656689987200011021068489998613225--746898998


Q ss_pred             ECCCCEEEECHHHHHHCC---CCCEEEEEECCCCEEEEEEECCC--CCEEEEEECCCEEEEEEHHHCCCCCCCCCCCEEE
Q ss_conf             479918984236862047---77227866158985788896189--8269999369859997587623547866553576
Q gi|254780182|r  652 TKHGNVRRNKLSDFIQIN---RSGKIAMKLDSRDEILSVETCTQ--ENDILLTTKLGQCVRFPISAIRVFAGRNSVGVRG  726 (910)
Q Consensus       652 Tk~G~VKkt~l~ef~~~r---~~G~~aikLkegD~Li~v~~~~~--~~~Iil~T~~G~~lrF~~~evr~~~GR~a~GVkg  726 (910)
T Consensus       608 sklg~vKriel~~l~~~~~y~sK~~~~~~L~D~d~li~a~~~~~Gh~~~i~lvS~~gy~l~F~~~Ei~~~-~~~A~GvK~  686 (745)
T TIGR01061       608 SKLGMVKRIELTELDIKRNYRSKAILILKLKDEDELISAFLQKKGHDKLIILVSKLGYALLFLVEEINVV-GAKAAGVKG  686 (745)
T ss_pred             HHCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCCEEEEEEECCCCCCEEEEEEECCCEEEECCEEECCC-CCCCCCEEE
T ss_conf             7558747876032477865101223321117895438999841888441899973683577302033231-446673113


Q ss_pred             EECCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCEEEEEECC
Q ss_conf             75289986999897336665420000012223333333455544444444333222223200111012568679999759
Q gi|254780182|r  727 ISLAKGDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDTEEITSLKNDSSVEGNISEERCQELKLKEQFILTVSEK  806 (910)
Q Consensus       727 IkL~~~D~Vv~~~vi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~IL~vTe~  806 (910)
T Consensus       687 mkLK~~D~v~~~~i~~~~~-----------------------------------------------------~~vll~~~  713 (745)
T TIGR01061       687 MKLKEDDEVKSGLILEANE-----------------------------------------------------SLVLLTQR  713 (745)
T ss_pred             EECCCCCEEEEEEEECCCC-----------------------------------------------------CEEEEEEC
T ss_conf             3057676389999982799-----------------------------------------------------55899736


Q ss_pred             CCEEEEEHHHCCCCCCCCCCEEEEE
Q ss_conf             9345301788486675774148876
Q gi|254780182|r  807 GFGKRTSSYDFRISNRSGKGIRATD  831 (910)
Q Consensus       807 G~GKRt~~~eyr~q~RGgkGv~~ik  831 (910)
T Consensus       714 Gs~k~~~~~El~~~sRa~~~~~llR  738 (745)
T TIGR01061       714 GSVKRLSISELKVTSRAATGVKLLR  738 (745)
T ss_pred             CCEEEEEHHHHHHHHHHCCCCHHHC
T ss_conf             8256510365555343116511110