HHsearch alignment for GI: 254780470 and conserved domain: cd04456

>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=97.50  E-value=0.00081  Score=43.36  Aligned_cols=61  Identities=25%  Similarity=0.270  Sum_probs=52.0

Q ss_pred             EEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCEEEEEEEEECCCE
Q ss_conf             89998158981799981667765333233544333445555444555554455568828999912511201647702996
Q gi|254780470|r   11 GIVSELLPNANFRVKLITNDDDSSADCKLDSKVKSNFSESGSESGNDGVDPISYLDNAVVIAYTAGRMRKHRIRISLGDK   90 (110)
Q Consensus        11 G~V~E~LPna~FrV~L~~~d~~~~~~~~l~~~~~~~f~~~g~~~g~~g~~~~s~~~~~~VlA~isGKmRk~~IRIl~GDk   90 (110)
T Consensus         4 ~~V~~~lG~~r~~v~c--------------------------------------~DG~~rl~~ipGk~rk-rvWI~~gD~   44 (78)
T cd04456           4 VRVLRMLGNNRHEVEC--------------------------------------ADGQRRLVSIPGKLRK-NIWIKRGDF   44 (78)
T ss_pred             EEEEECCCCCEEEEEE--------------------------------------CCCCEEEEEECCCCEE-EEEEECCCE
T ss_conf             9999836997799991--------------------------------------8999999994063334-089836999


Q ss_pred             EEEEECCC-CCCCCEEEEEEC
Q ss_conf             99997467-578435988429
Q gi|254780470|r   91 VKVAMNPY-DMTRARITYRFK  110 (110)
Q Consensus        91 V~Ve~SPY-DLtkGRItyR~K  110 (110)
T Consensus        45 VlV~~~e~~~d~K~dIi~ky~   65 (78)
T cd04456          45 LIVDPIEEGEDVKADIIFVYC   65 (78)
T ss_pred             EEEEEHHHCCCCEEEEEEECC
T ss_conf             999881237984699999679