HHsearch alignment for GI: 254780317 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=100.00  E-value=0  Score=701.38  Aligned_cols=217  Identities=56%  Similarity=1.020  Sum_probs=209.4

Q ss_pred             CHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHC
Q ss_conf             38999999999999873987623723415889888618988773316331277505666556322446763055554303
Q gi|254780317|r  116 HPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQ  195 (366)
Q Consensus       116 HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~  195 (366)
T Consensus         1 Hpl~~~~~~i~~~f~~~GF~~~~gp~ie~~~~NFD~Ln~P~dHPaR~~~DTfy~~~---~~~~lLRtHTS~~q~r~l~~~   77 (218)
T cd00496           1 HPLNKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYIND---PARLLLRTHTSAVQARALAKL   77 (218)
T ss_pred             CCHHHHHHHHHHHHHHCCCEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEECC---CCCCEECCCCCHHHHHHHHHC
T ss_conf             94789999999999877986822895123103045338598875537243278637---766021578756679999745


Q ss_pred             CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEE
Q ss_conf             63122541057647454-42137810020057861786689998899999999708886626454238898526610367
Q gi|254780317|r  196 DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDV  274 (366)
Q Consensus       196 ~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv  274 (366)
T Consensus        78 ~~p~~~~~~G~VyR~D~iDatH~~~FhQ~Eg~~v~~~~~~~~Lk~~l~~~~~~lfg-~~~~~r~rp~yFPFTePS~Evdv  156 (218)
T cd00496          78 KPPIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELFG-PITKVRFRPSYFPFTEPSFEVDV  156 (218)
T ss_pred             CCCCEEEECCCEEECCCCCCCCCCEEEEEEEEEEECCCCHHHHHHHHHHHHHHHCC-CCCEEEECCCCCCCCCCCEEEEE
T ss_conf             89817994250465388984315312576379995651199999999999999738-76645367788999998269999


Q ss_pred             EEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCHH
Q ss_conf             875058804224688348984575638889985698800037996313446997997389705876635888
Q gi|254780317|r  275 RCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADVR  346 (366)
Q Consensus       275 ~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~r  346 (366)
T Consensus       157 ~~~~~~---------~WlEv~G~G~v~p~vL~~~G~d-~~~~g~AfG~GlERlaMl~~gI~DIR~~~~~D~R  218 (218)
T cd00496         157 YCPGCL---------GWLEILGCGMVRPEVLENAGID-EEYSGFAFGIGLERLAMLKYGIPDIRLFYSNDLR  218 (218)
T ss_pred             EECCCC---------CCEEEECCCCCCHHHHHHCCCC-CCCEEEEEEECHHHHHHHHCCCCHHHHHHHCCCC
T ss_conf             965878---------7148850465488999866979-9988999852588999998399768887516889