HHsearch alignment for GI: 254780237 and conserved domain: pfam01193
>pfam01193 RNA_pol_L RNA polymerase Rpb3/Rpb11 dimerization domain. The two eukaryotic subunits Rpb3 and Rpb11 dimerize to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerization domain of the alpha subunit/Rpb3 is interrupted by an insert domain (pfam01000). Some of the alpha subunits also contain iron-sulphur binding domains (pfam00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp.
Probab=99.86 E-value=1.2e-21 Score=160.34 Aligned_cols=91 Identities=53% Similarity=0.776 Sum_probs=87.1
Q ss_pred EECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHCCCEEEECCCCCEEEEEEEECC
Q ss_conf 96169756678889999987416983068899988714431466462444999998401141777279827999999447
Q gi|254780237|r 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 (340)
Q Consensus 32 ~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~EDV~eIiLNLK~I~~k~~~~~~~~~~l~~~Gp 111 (340)
T Consensus 1 i~~~~~g~~~t~~NaLRr~Ll~evp~~ai~~------------------------------------------------- 31 (91)
T pfam01193 1 IEFLLEGEDHTLGNALRRILLSEVPGVAIAG------------------------------------------------- 31 (91)
T ss_pred CCCCCCCCCEEHHHHHHHHHHHCCCCCEEEE-------------------------------------------------
T ss_conf 9522155530067899999885188744785-------------------------------------------------
Q ss_pred EEEEEEEEECCCCEEEECCCEEEEEECCCCEEEEEEEEECCCCCEECCCCCCCCCCCCEECCCCCHHEEEEEEEEEEEEC
Q ss_conf 16996335138985998888089997789649999997468763203444465575430212431111442235776411
Q gi|254780237|r 112 GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 (340)
Q Consensus 112 ~~vtA~Di~~p~~veivNpd~~IaTl~~~~~l~iel~ie~G~GY~~~e~~~~~~~~ig~i~iDa~FsPV~~Vny~Ve~~r 191 (340)
T Consensus 32 --------------------------------------------------------------~a~~~Pv~~v~y~~~~~~ 49 (91)
T pfam01193 32 --------------------------------------------------------------DAKFSPVKKVNYRVEPTR 49 (91)
T ss_pred --------------------------------------------------------------CCCCCCCEEEEEEEECCC
T ss_conf --------------------------------------------------------------166678147766883422
Q ss_pred CCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 688776218999999389617779999999999998887622
Q gi|254780237|r 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 (340)
Q Consensus 192 vg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~ 233 (340)
T Consensus 50 ~~~~~~~~~~~~~IeT~Gsi~p~~~l~~A~~~L~~~~~~~~~ 91 (91)
T pfam01193 50 VGQNTDYDKLILEIETDGSITPEEALLEAAKILIDKLDELLE 91 (91)
T ss_pred CCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf 067677505999999799889999999999999999987629