HHsearch alignment for GI: 254780294 and conserved domain: cd01488

>cd01488 Uba3_RUB Ubiquitin activating enzyme (E1) subunit UBA3. UBA3 is part of the heterodimeric activating enzyme (E1), specific for the Rub family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins. consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin(-like) by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by Rub family of ubiquitin-like proteins (Ublps) activates SCF ubiquitin ligases and is involved in cell cycle control, signaling and embryogenesis. UBA3 contains both the nucleotide-binding motif involved in adenylation and the catalytic cysteine involved in the thioester intermediate and Ublp transfer to E2.
Probab=94.77  E-value=0.17  Score=28.41  Aligned_cols=66  Identities=17%  Similarity=0.141  Sum_probs=49.5

Q ss_pred             EEEEECCCCHHHHHHHHHHHCCCCEEEEEE---------------ECCCCCCCC--------------------------
Q ss_conf             799975886789999999862997289999---------------653007860--------------------------
Q gi|254780294|r    3 KIFIDGEHGTTGLKIRSRIVQRKDLCLLSI---------------PCEERHNLR--------------------------   41 (311)
Q Consensus         3 kVaIvGATG~vG~~li~lL~~hp~~~l~~l---------------~s~~~ag~~--------------------------   41 (311)
T Consensus         1 kvlvvG~-GglG~e~~k~la~~Gvg~i~ivD~d~i~~sNL~rQflf~~~dvG~~Ka~~a~~~i~~~np~v~v~~~~~~i~   79 (291)
T cd01488           1 KILVIGA-GGLGCELLKNLALSGFRNIHVIDMDTIDVSNLNRQFLFREKDIGKPKAEVAAKFVNDRVPGVNVTPHFGKIQ   79 (291)
T ss_pred             CEEEECC-CHHHHHHHHHHHHCCCCEEEEECCCEECCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHCCCCEEEEEECCHH
T ss_conf             9899928-888999999999848985999739934413565674676553687899999999998789978998505310


Q ss_pred             -CCHHHHCCCCEEEECCCCHHHHHHHHHH
Q ss_conf             -0667747998999938983789999998
Q gi|254780294|r   42 -YREDLLNAADVSILCLPDVASLEIIQLI   69 (311)
Q Consensus        42 -~~~~~~~~~Divf~a~p~~~s~~~~~~~   69 (311)
T Consensus        80 ~~~~~f~~~fdvVi~~lDn~~aR~~vN~~  108 (291)
T cd01488          80 DKDEEFYRQFNIIICGLDSIEARRWINGT  108 (291)
T ss_pred             HCCHHHHHHCCEEEECCCCHHHHHHHHHH
T ss_conf             07898995199999887899999999999