HHsearch alignment for GI: 254780814 and conserved domain: cd03481

>cd03481 TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded by a single gene. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. This transducer domain is homologous to t
Probab=99.88  E-value=3.8e-22  Score=191.06  Aligned_cols=130  Identities=22%  Similarity=0.287  Sum_probs=96.9

Q ss_pred             CCEEEEEEEEEEEEEEEEEECCCCCCEEEEEECCCCCCCCCCEEHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHCC
Q ss_conf             52036420036999733453177541212222462166677210356888999999999862420001235761343057
Q gi|254780814|r  246 SPIRIQGSRDNISIDLAMRWNDGYHENVLCFTNNIPQKDGGTHLSGLRSALTRQITSYVEKSFGSKKDKRSVIGDDCREG  325 (803)
Q Consensus       246 ~~i~~~~~~~~~~veval~~~~~~~e~i~SfvN~I~T~~GGtHv~gf~~al~~~i~~y~~~~~~~Kk~k~~~~~~Direg  325 (803)
T Consensus        22 ~~~~~e~~~--~rWeV~v~~s~~~f~qv-SFVNgI~T~~GGtHVd~i~~~I~~~l~~~i~kk---~K~~~~ik~~~Ik~~   95 (153)
T cd03481          22 PPVVYEPVN--DRWEVAVALSDGQFQQV-SFVNSIATTKGGTHVDYVADQIVKKLDEVVKKK---NKGGINVKPFQVKNH   95 (153)
T ss_pred             CCEEEECCC--CCEEEEEEECCCCCEEE-EEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHH---CCCCCCCCHHHHHHH
T ss_conf             977980379--98899999879982798-886660069998666999999999999999985---678877799999844


Q ss_pred             CEEEEEEECCCCCCCCCCHHHHCCCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2156665213763357210020261111032111026899998740035799987789998
Q gi|254780814|r  326 FTSVLSIKMPDPRFSSQTKEKLVSSEVRSVVESFVNDGLSAWLEEHPLEAKIIVKKVLDAS  386 (803)
Q Consensus       326 l~~visvki~nP~F~gQTK~kL~s~~v~~~v~~~v~~~l~~~l~~n~~~ak~i~~k~~~a~  386 (803)
T Consensus        96 l~ifv~~~I~NP~FdSQTKe~Ltt~~~~FGsk~~ls~~fi~k~~k~-----~i~~~v~~~a  151 (153)
T cd03481          96 LWIFVNCLIENPSFDSQTKETLTTKPKSFGSKCELSEKFLKKAVKS-----GIVESVLSWA  151 (153)
T ss_pred             CEEEEEEEECCCCCCCHHHHHHCCCHHHCCCCCCCCHHHHHHHHHC-----HHHHHHHHHH
T ss_conf             1799999826998662123242485565698766799999999834-----1999999886