>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit; InterPro: IPR005737 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 B (parE) of topoisomerase IV from Gram negative 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, 0005694 chromosome.

Probab=100.00 E-value=0 Score=1400.72 Aligned_cols=634 Identities=43% Similarity=0.712 Sum_probs=604.6 Q ss_pred CCCCHHHEEECCCCHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEEECCCCCCCCCC Q ss_conf 23697560231121034326981546777550220244366667877761899769999828983999966984344417 Q gi|254780222|r 42 DNYDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANLIEVSLDGNGFLTVVDNGRGIPVENH 121 (686) Q Consensus 42 ~~Y~~~~i~~L~glE~VrkRP~mYIGst~~~GL~~i~~EIldNavDe~~~g~~~~I~V~i~~dg~IsV~ddGrGIPv~~h 121 (686) T Consensus 2 ~~YsA~~I~VL~gLEPVr~RPGMY~GGtD~~~~~HL~~EV~DN~~DEA~AGfA~~i~v~lH~D~Si~v~D~GRG~PvD~H 81 (647) T TIGR01055 2 TNYSAKDIEVLDGLEPVRKRPGMYTGGTDTTRPNHLVQEVIDNSVDEALAGFASKIEVILHQDQSIEVIDNGRGMPVDIH 81 (647) T ss_pred CCCCCCHHHHHCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCEEEEEECCCCCCCCCC T ss_conf 87461013220168773428872017865653013455544333555540653078899828961799888830344278 Q ss_pred CCCCCCEEEEEEEEEEECCCCCCCCCEEEECCCCCHHHHHHHHEEEEEEEEEECCCEEEEEEEECCCEECCCEECCCC-C Q ss_conf 665787012345452002477777741563144538898762032126999941883899997279451131121676-7 Q gi|254780222|r 122 PKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGISVVNALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKV-R 200 (686) Q Consensus 122 ~k~~~~~~~Elif~~L~aggnfdd~~yk~sgGlnGvGaklvNalS~~f~Vev~r~gk~y~q~f~~g~~~~~~~~i~~~-~ 200 (686) T Consensus 82 P~~P~~sa~EvILt~LHaG~KFSN~~Y~~sGGLHGVGISVVNALS~~~~i~V~~~G~~Y~~af~~G~K~~dL~~~~~~Gk 161 (647) T TIGR01055 82 PKEPGVSAVEVILTKLHAGGKFSNKNYEFSGGLHGVGISVVNALSKRVKIKVKRQGKLYSIAFENGAKVTDLEVVGTCGK 161 (647) T ss_pred CCCCCCCEEEEEEEECCCCCCCCCCCCCCCCCEECCHHHHEEECCCEEEEEEEECCEEEEHHHHCCCCHHHHHHHHCCCC T ss_conf 88888862355643005785211444013686002143202201323678997467043202215751102332112677 Q ss_pred CCCCEEEEEEECHHHEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCEEEEEECCCCHHHHHCCCCCC Q ss_conf 78853999998424320012222899999888875305773599951645322245541123431586122210024677 Q gi|254780222|r 201 NKRGTRITFRPDPKIFGDKAGFDAARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQTKLENR 280 (686) Q Consensus 201 ~k~GT~ItF~PD~~iFg~~~~~d~~~l~~rl~~~A~L~~gl~i~~~~~~~~~~~~~~~~~~~f~~~~Gi~dyv~~~~~~~ 280 (686) T Consensus 162 R~~GT~v~F~Pd~~~F~~k~~F~~~~l~~~~raKA~L~~Gv~I~f~~~v~~--PsdiP~~~~~~y~~GL~DYL~~~v~~~ 239 (647) T TIGR01055 162 RLTGTSVHFTPDPEIFDSKLKFSVSRLYHILRAKAVLCRGVEIEFEDEVNN--PSDIPTKALWNYEDGLKDYLSEAVNGL 239 (647) T ss_pred CCCCCEEEECCCCCHHCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECC--CCCCCHHHHHHCCCCHHHHHHHHHCCC T ss_conf 655635773168201031225578999999863242026720789751068--655754554311033136888763123 Q ss_pred CCCCCCCEEEEEEECCCEEEEEEEEEEECCCCCC--EEEEEEECCCCCCCEEECCHHHHHHHHHHHHHHHCCC-CCCCCC Q ss_conf 6667752033332148015589998541467774--2788830006557524130467899999987630188-332223 Q gi|254780222|r 281 SLISSEIFTGKTEKKGTHRGTVEWAIAWCEENPE--ITSYCNTILTDEGGTHESGLRVALTRGIKKYAELTQN-KRAISI 357 (686) Q Consensus 281 ~~~~~~~~~~~~~~~~~~~~~veval~~~~~~~~--~~SFVN~I~T~~GGTHv~g~~~ai~k~i~~~~~~~~~-kk~~~i 357 (686) T Consensus 240 ~~~~~~~F~G~~~~t-vd~~~~~WAl~W~~~~~~~~~~SY~N~iPT~QGGTH~~GL~~~lL~a~~~f~E~~~~~P~~~~L 318 (647) T TIGR01055 240 NTLPKKPFVGNFEGT-VDDEAVEWALLWLPEGGELLMESYVNLIPTIQGGTHVNGLRQGLLDALREFCEMRNLLPRGVKL 318 (647) T ss_pred CCCCCCCEECCCCCC-HHHHHCCEEEEECCCCCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEC T ss_conf 223455300232110-1111002446632788400320411015789887104578999999999988875188640221 Q ss_pred CCCCCCCCEEEEEEEEEEHHHCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 32222364269999776345607644662025232000012101588999774013568899999999996545443344 Q gi|254780222|r 358 ISDDLMISAVGILSVFIREPEFAGQTKTKLVSLDAQRTVENALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQRE 437 (686) Q Consensus 358 ~~~dIk~~L~~~Isv~I~nP~FesQTKekL~s~~~~~~v~~~i~~~l~~~l~~n~~~a~~I~~~~~~~a~~r~~~~k~k~ 437 (686) T Consensus 319 t~eDI~~~~s~vLS~~~~~p~F~GQTKE~L~S~~~a~~V~~v~KD~F~~~L~~~~~~A~~L~E~~I~~A~~Rrn~~~~~~ 398 (647) T TIGR01055 319 TAEDILDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKLVSGVIKDAFDLWLNQNVQLAEKLAEIAISSAQRRRNKRAAKK 398 (647) T ss_pred CHHHHHHHHHEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 08888731110145566556657753123313135788777787788887411078899999999888887765455314 Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCHHHCCCCCCEEEEEECCEECCHHHHHHHHHHCCHHHHHHH Q ss_conf 42211002456533356776565540379973276764210010112220122112313144541087763228899999 Q gi|254780222|r 438 VNRKTAIRKLRLPGKLADCSQNIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLV 517 (686) Q Consensus 438 ~~rk~~~~~~~lpgKL~Da~~~~~~~~eL~lvEGDSA~gsAk~grdr~~qgi~PLRGKiLNv~~as~~ki~~N~Ei~~l~ 517 (686) T Consensus 399 v~RK~~~~~~~LPGKLADCt~~~~e~TELFlVEGDSAGGSAKQAR~RE~QAilPL~GKiLN~~~~~~~~vl~~~~i~D~~ 478 (647) T TIGR01055 399 VVRKKLTSGPALPGKLADCTRQDLEKTELFLVEGDSAGGSAKQARDREYQAILPLKGKILNTWEVSLDKVLNSQEIHDIE 478 (647) T ss_pred CCHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCCEEECCCCCCEEEEECCCHHHHHCCCCCCEEE T ss_conf 20012104678897211334311126427898325677521343053201214456647763214644553124200021 Q ss_pred HHHCCCCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEEECCEEEEECCHHHH Q ss_conf 88256654333334655251899977987714688999999998708886339389930996999748979993789999 Q gi|254780222|r 518 QALGCRTRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIEQKHLFLISPPLFRITQGTKSVYAHDEEHK 597 (686) Q Consensus 518 ~~lGl~~g~~~~~~~LRYgkIiImTDaD~DGsHI~~Lll~ff~~~~p~Li~~g~v~~~~tPl~kv~~g~~~~y~~~e~e~ 597 (686) T Consensus 479 vAl~~~~~~~~k~~~LRY~Ki~Il~DAD~DG~HIA~LL~~lF~~~~p~LV~~GH~Y~A~PPLYR~~~~~~vyYA~dEeEK 558 (647) T TIGR01055 479 VALGIDPDSNDKLSQLRYGKIIILADADSDGLHIATLLCALFLKHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEK 558 (647) T ss_pred EEEECCCCCHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCEEEECCCEEEEECCHHHH T ss_conf 02224872000364267222889841788807899999999999888887539078717872021068706885284668 Q ss_pred HHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHCCCCCCEEEEEEEECCCCCCHHHHHHHHHHHCCCC-HHHHHHHHHH Q ss_conf 999998774178860786850677889889988603940007999986641026798999999880798-1689999997 Q gi|254780222|r 598 QKILEEFKKHGKGKIEISRFKGLGEMLASQLKETAMDANKRTLLRVEINKDLNSLKDTQDSINKLMGTK-ADERFKFIQE 676 (686) Q Consensus 598 ~~~~~~~~~~~~~k~~i~ryKGLGe~~~~e~~et~~~p~~r~l~~v~~~~~~~~~~~~~~~f~~lmG~~-~~~RK~wi~~ 676 (686) T Consensus 559 ~~~~~~L~~~sK~K~~V~RFKGLGEM~P~QL~ETT~~P~~R~L~~~T~~~~~~q~~D~l~~~D~LlaKKR~E~R~~~l~~ 638 (647) T TIGR01055 559 EKLLEKLKKKSKGKPNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDTLKLVDMLLAKKRSEDRKNWLQE 638 (647) T ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 99999997630688544110254567820121035888761378876312556553279999987506884468999998 Q ss_pred HH Q ss_conf 52 Q gi|254780222|r 677 RA 678 (686) Q Consensus 677 ~~ 678 (686) T Consensus 639 qa 640 (647) T TIGR01055 639 QA 640 (647) T ss_pred HH T ss_conf 77

HHsearch alignment for GI: 254780222 and conserved domain: TIGR01055