HHsearch alignment for GI: 254780237 and conserved domain: cd06926

>cd06926 RNAP_II_RPB11 RPB11 subunit of Eukaryotic RNA polymerase II. The eukaryotic RPB11 subunit of RNA polymerase (RNAP) II is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP II is responsible for the synthesis of mRNA precursor. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association.
Probab=90.52  E-value=0.56  Score=26.58  Aligned_cols=47  Identities=21%  Similarity=0.210  Sum_probs=33.5

Q ss_pred             CCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEE
Q ss_conf             42015863678881589999616975667888999998741698306889998
Q gi|254780237|r   13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI   65 (340)
Q Consensus        13 ~~i~~~~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI   65 (340)
T Consensus         5 ~Kv~~~-~dtk~pn~~~f~~----~~EDHTLGNlL~~~L~~-~~~v~fagY~~   51 (93)
T cd06926           5 KKITEK-KDTKVPNAATFTI----NKEDHTLGNLLRMQLLK-DPNVLFAGYKV   51 (93)
T ss_pred             CCEEEE-CCCCCCCEEEEEE----ECCCCCHHHHHHHHHHH-CCCCEEEEECC
T ss_conf             445984-1788985389999----17885089999999962-99956977517