HHsearch alignment for GI: 254780191 and conserved domain: cd00496

>cd00496 PheRS_alpha_core Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer.
Probab=93.63  E-value=0.62  Score=26.13  Aligned_cols=182  Identities=13%  Similarity=0.094  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHHHCCCEECCCCCCCCCCCC-CH---------------HEEECCC-CCCCCCCCC-------CCCCCCC
Q ss_conf             7899999999999789889116675667787-10---------------0230143-475540058-------8799999
Q gi|254780191|r    4 VSSIRTTFLEFFQKNGHELLPSSSLIPCNDP-TL---------------MFTNSGM-VPFKNIFTG-------QEKPVYQ   59 (898)
Q Consensus         4 ~~eiR~~fl~fF~~~~H~~~~s~slvp~~d~-~l---------------lft~Agm-~~fk~~f~G-------~~~p~~~   59 (898)
T Consensus         3 l~~~~~~i~~~f~~~GF~~~~gp~ie~~~~NFD~Ln~P~dHPaR~~~DTfy~~~~~~~lLRtHTS~~q~r~l~~~~~p-~   81 (218)
T cd00496           3 LNKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYINDPARLLLRTHTSAVQARALAKLKPP-I   81 (218)
T ss_pred             HHHHHHHHHHHHHHCCCEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEECCCCCCEECCCCCHHHHHHHHHCCCC-C
T ss_conf             789999999999877986822895123103045338598875537243278637766021578756679999745898-1


Q ss_pred             CCCCCCCCEECCCCCCCHHHCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCHHHEEEEECCCHHHHHHH
Q ss_conf             85111543224898786343464885001788854223147537889998998613341898123799971882899997
Q gi|254780191|r   60 AVTTVQKCVRAGGKHNDLDNVGRTNRHHTFFEMLGNFSFGGYFKERAIQLAWDLLTKEFDLDQRRLYITVYDEDEEAFKL  139 (898)
Q Consensus        60 r~~~~QkCiR~ggkhnDld~VG~t~rH~TfFEMlGn~SfgdYfK~eai~~awe~lt~~~~l~~~~l~vtv~~~D~e~~~i  139 (898)
T Consensus        82 ~~~~~G~VyR-----~D~----iDatH~~~FhQ~Eg~~v~~~~~~~~Lk~~l~~~~~~lfg~~-----------------  135 (218)
T cd00496          82 RIFSIGRVYR-----NDE----IDATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELFGPI-----------------  135 (218)
T ss_pred             EEEECCCEEE-----CCC----CCCCCCCEEEEEEEEEEECCCCHHHHHHHHHHHHHHHCCCC-----------------
T ss_conf             7994250465-----388----98431531257637999565119999999999999973876-----------------


Q ss_pred             HHHHCCCCHHHEEECCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEEEH-HHHHHHCCCCCCCCC
Q ss_conf             5663499989975357866654579999987704678853855689888777889826896001-123443047887565
Q gi|254780191|r  140 WKKISGLSADKIIRITTNDNFWSMAETGPCGPCSEIFFDQGECIPGGLPGSSEEGERYIEIWNL-VFMQFEQQNKQERFI  218 (898)
Q Consensus       140 W~~~~gi~~~~i~~~~~~dNfW~~g~~GpcGPcsEi~~d~g~~~~~~~~~~~~~~~r~lEiwNl-VFmq~~~~~~g~~~~  218 (898)
T Consensus       136 ----------~~~r-------~rp~yFPFTePS~Evdv~~~------------~~~~WlEv~G~G~v~p-~vL~~~G~d-  184 (218)
T cd00496         136 ----------TKVR-------FRPSYFPFTEPSFEVDVYCP------------GCLGWLEILGCGMVRP-EVLENAGID-  184 (218)
T ss_pred             ----------CEEE-------ECCCCCCCCCCCEEEEEEEC------------CCCCCEEEECCCCCCH-HHHHHCCCC-
T ss_conf             ----------6453-------67788999998269999965------------8787148850465488-999866979-


Q ss_pred             CCCCCCCCCCCHHHHHHHHCCCCCC
Q ss_conf             7665310175799999998879853
Q gi|254780191|r  219 LPKMSIDTGMGLERMATVLQEKTNN  243 (898)
Q Consensus       219 Lp~~~IDTGmGLERl~~vlqg~~s~  243 (898)
T Consensus       185 ~~~~g~AfG~GlERlaMl~~gI~DI  209 (218)
T cd00496         185 EEYSGFAFGIGLERLAMLKYGIPDI  209 (218)
T ss_pred             CCCEEEEEEECHHHHHHHHCCCCHH
T ss_conf             9988999852588999998399768