HHsearch alignment for GI: 254780557 and conserved domain: cd04661

>cd04661 MRP_L46 Mitochondrial ribosomal protein L46 (MRP L46) is a component of the large subunit (39S) of the mammalian mitochondrial ribosome and a member of the Nudix hydrolase superfamily. MRPs are thought to be involved in the maintenance of the mitochondrial DNA. In general, members of the Nudix superfamily require a divalent cation, such as Mg2+ or Mn2+, for activity and contain the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. MRP L46 appears to contain a modified nudix motif.
Probab=98.61  E-value=4.7e-07  Score=61.50  Aligned_cols=109  Identities=19%  Similarity=0.280  Sum_probs=65.2

Q ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCC-C-CCCEEECCCCCCCCCCCCCCCC
Q ss_conf             8399999268877666872201211507888888999999999837552222201-3-6612411632220000112344
Q gi|254780557|r   15 DLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSISLLGQ-G-DSYIQYDFPAHCIQENGYVGQM   92 (160)
Q Consensus        15 ~~iLl~kR~~~~~~~~~g~W~~PgG~ve~gEt~~~Aa~REl~EEtGi~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~   92 (160)
T Consensus        13 tLyLlVk~k~g----~~~~W~fP~~~~~~~EtLr~~Aer~L~~~~G~~~~~~~vgnaP~g~~k~k~p~~~~-~~~~~G~K   87 (132)
T cd04661          13 TLVLLVQQKVG----SQNHWILPQGKREEGETLRQTAERTLKELCGNNLKAKFYGNAPVGFYKYKYPKAVR-NEGIVGAK   87 (132)
T ss_pred             EEEEEEEECCC----CCCEECCCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEECCCCEEEEEEECCCCCC-CCCCCCEE
T ss_conf             39999995379----88880288424667854899999999986077736789626875889875685224-44666347


Q ss_pred             CEEEEEEECCCCCCEECCCCCCCCCCCCCEEEECCHHHHHHCCHH
Q ss_conf             337999980475430105788888886003760378997630000
Q gi|254780557|r   93 QKWFAFRFQGLTSEICVDRTAYGYESEFDAWTWVSLWDTPNIVVD  137 (160)
Q Consensus        93 ~~~~~~~~~~~~~~i~~~~~~~~~~~E~~~~~Wv~~~el~~~i~~  137 (160)
T Consensus        88 ~Ff~ka~~~~G~~~--~~-------~~~~df~Wltk~EL~~~l~~  123 (132)
T cd04661          88 VFFFKARYMSGQFE--LS-------QNQVDFKWLAKEELQKYLNP  123 (132)
T ss_pred             EEEEEEEEECCCCC--CC-------CCCCEEEECCHHHHHHHCCH
T ss_conf             99999999558646--56-------77520387089999876599