HHsearch alignment for GI: 254780130 and conserved domain: pfam11496
>pfam11496 HDA2-3 Class II histone deacetylase complex subunits 2 and 3. This family of class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi, The member from S. pombe is referred to as Ccq1. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C-terminus.
Probab=96.82 E-value=0.0058 Score=35.94 Aligned_cols=147 Identities=13% Similarity=0.094 Sum_probs=83.4
Q ss_pred HHHHHHHHCCCCHHC-C----------CCCCCCCCCHHHHHHHHHHHHHC----CCCCEEEHHHHHHHHHHHHHHHHCCC
Q ss_conf 999998860770003-4----------45654205723433499998614----89971105789999999876530477
Q gi|254780130|r 28 KTVKCLQLANGAVYY-D----------EEKHWKEVHDEKIKALEVIIEKA----NAAPIIVAYHFNSDLARLQKAFPQGR 92 (205)
Q Consensus 28 ~~~kL~Ql~~g~~~~-d----------~~~~~~~~~~~Kl~~l~~ii~~~----~~~kviVf~~f~~~l~~l~~~~~~~~ 92 (205)
T Consensus 58 ~~~~l~~Va~HP~LlidH~~p~~l~~~~~~~~~~~tSgKF~~L~~Li~~~~~~~~~~~ilIv~~~~k~ldLlE~~llgk~ 137 (278)
T pfam11496 58 LFENLSNVATHPYLLIDHYMPKSLLLKEEAEHLAETSGKFLVLNDLINLLIPSERDLHVLIISRSGKTLDLVEALLLGKG 137 (278)
T ss_pred HHHHHHHHCCCCCHHHCCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHCCCC
T ss_conf 99975554279326434557876644244789998233399999999998734578379999789537999999972586
Q ss_pred C---------HHHHHHHHHHHH-CCCCCEEEECHHHHH-----HHHHHHHHCCEEEEECCCCCHHH-HHHHHHHHHHHHH
Q ss_conf 8---------234899999972-789869997214432-----33224320675897268999888-0225555766654
Q gi|254780130|r 93 T---------LDKDPCTIQEWN-EGKIPLLFAHPASCG-----HGLNLQYGGNILVFFSLWWDLEE-HQQMIERIGVTRQ 156 (205)
Q Consensus 93 ~---------~~~r~~~i~~f~-~~~~~Vll~~~~a~g-----~GlnL~~a~~~vI~~~~~~n~~~-~~Qa~~Ri~~~r~ 156 (205)
T Consensus 138 ~~y~r~~g~~~~~~~~~~~~~k~~~s~~I~l~~~~-~~~~~~~~~~~~-~~~d~Iia~D~s~d~~~p~ie~lR~~----- 210 (278)
T pfam11496 138 LKYKRLSGESLYEENHKVSDKKGSLSFWIHLTTSD-GLTNTDSSLLSN-YKFDLIISFDPSLDTSLPSIESLRTT----- 210 (278)
T ss_pred EEEECCCCCCCCCCCCCCCCCCCCCEEEEEEECCC-CCCCCCCCCCCC-CCCCEEEEECCCCCCCCHHHHHHHHH-----
T ss_conf 46760788767665545655578840699970687-754578884435-65277999568879897489999863-----
Q ss_pred HCCCCCCCEEEEEEEECCCHHHHHHHH
Q ss_conf 202657753999998388958999999
Q gi|254780130|r 157 RQAGFKRAVFVYYLIAQNTIDELVLQR 183 (205)
Q Consensus 157 hR~GQ~~~v~v~~l~~~~tiEe~i~~~ 183 (205)
T Consensus 211 ~~~~--~~~PvirLv~~nSiEHi~l~~ 235 (278)
T pfam11496 211 NRRG--RLTPIIRLVVVNSIEHIELCF 235 (278)
T ss_pred CCCC--CCCCEEEEEECCCHHHHHHHC
T ss_conf 4489--988779995269999999875