HHsearch alignment for GI: 254780143 and conserved domain: pfam04565
>pfam04565 RNA_pol_Rpb2_3 RNA polymerase Rpb2, domain 3. RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 3, s also known as the fork domain and is proximal to catalytic site.
Probab=99.82 E-value=3e-21 Score=170.82 Aligned_cols=68 Identities=51% Similarity=0.941 Sum_probs=64.9
Q ss_pred EECCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCEEEECEEEEEEEC
Q ss_conf 5415542102322001122344444322346655432211110444303566765210210001224424
Q gi|254780143|r 524 QLEEHVNSLSRITHTRRLSALGQGGVARARAGVEMRDVHPTHYGRICPAETSEGHNIGLVSSLTSFARVN 593 (1386)
Q Consensus 524 q~ld~~n~ls~lth~RR~s~lgpggl~r~~~~~evR~ih~s~~GriCPieTPEG~n~GLv~~la~~a~in 593 (1386)
T Consensus 1 Q~l~r~n~ls~lShlRri~~~--~~~~~~~k~~~~R~lh~s~~G~iCp~eTPEG~~~GLvk~La~~~~Is 68 (68)
T pfam04565 1 QVLDQTNWLSELSHKRRVNRL--GGLSKERKTFEVRDLHPSQYGRICPIETPEGANCGLVNSLALYARIN 68 (68)
T ss_pred CCCCCCCHHHHHHHHHHCCCC--CCCCCCCCCCCCCCCCHHHCEEECCCCCCCCCCEEEEEEEEEEEEEC
T ss_conf 945225789999972601777--88664466766252587678044444288998355132124577709