>cd04460 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. RpoE is subunit E of archaeal RNA polymerase. Archaeal cells contain a single RNA polymerase made up of 12 subunits, which are homologous to the 12 subunits (RPB1-12) of eukaryotic RNA polymerase II. RpoE is homologous to Rpa43 of eukaryotic RNA polymerase I, RPB7 of eukaryotic RNA polymerase II, and Rpc25 of eukaryotic RNA polymerase III. RpoE is composed of two domains, the N-terminal RNP (ribonucleoprotein) domain and the C-terminal S1 domain. This S1 domain binds ssRNA and ssDNA. This family is classified based on the C-terminal S1 domain. The function of RpoE is not fully understood. In eukaryotes, RPB7 and RPB4 form a heterodimer that reversibly associates with the RNA polymerase II core.

Probab=95.24  E-value=0.037  Score=34.10  Aligned_cols=38  Identities=29%  Similarity=0.393  Sum_probs=32.6

Q ss_pred             CEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCCCC
Q ss_conf             78798997836388231353278977130222137121028
Q gi|254780751|r   41 NIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYYQI   81 (723)
Q Consensus        41 nIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~~i   81 (723)
T Consensus         1 Ev~eG~Vs~Vt~f--G~FV~L~~-ieGLvHiS~l~dD~~~f   38 (99)
T cd04460           1 EVVEGEVVEVVDF--GAFVRIGP-VDGLLHISQIMDDYISY   38 (99)
T ss_pred             CEEEEEEEEEEEC--CEEEEECC-CEEEEEHHHCCCCEEEE
T ss_conf             9799999958825--66999328-10689936757843998