HHsearch alignment for GI: 254780317 and conserved domain: cd00778
>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.
Probab=95.12 E-value=0.38 Score=29.39 Aligned_cols=199 Identities=13% Similarity=0.141 Sum_probs=101.0
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEE--ECHHHH-HHHHCCCCCCCCCCCCCEEEEECC---CCCCCCCCCCCCCCHH
Q ss_conf 2389999999999998739876237234--158898-886189887733163312775056---6655632244676305
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDI--ETDYYN-FAALNFPDDHPARQMHDTFFVPGI---AGGKHKLLRTHTSPVQ 188 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEI--Etd~~N-FdaLNiP~~HPARdmqDTFyl~~~---~~~~~~lLRthTS~vQ 188 (366)
T Consensus 32 ~~i~~~l~~~~r~~~~~~G~~ev~~P~l~~~~~~~k~s-------gh~~~y~~emf~v~~~g~~~~d~~y~LkPmne~~~ 104 (261)
T cd00778 32 YAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEK-------EHIEGFAPEVAWVTHGGLEELEEPLALRPTSETAI 104 (261)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-------CHHHCCCCCCEEEECCCCCCCCCCCCCCCCCHHHH
T ss_conf 99999999999999998699699883327889999742-------81430576533552168520135603478886999
Q ss_pred HHHH----HH-CCCEEEEEECCCCCCCCCCCCCC----CCCCCCCEEEECC--C---CCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 5554----30-36312254105764745442137----8100200578617--8---66899988999999997088866
Q gi|254780317|r 189 IRVM----ES-QDLPIKVIVPGKTYRRDSDSTHS----PMFHQIEGLVVSD--S---ATIANLRWVLESFCKSFFEVSSL 254 (366)
Q Consensus 189 iR~m----~~-~~pP~~~~~~GrvyR~d~D~tH~----~~FhQ~egl~v~~--~---i~~~~lk~~l~~~~~~~fg~~~~ 254 (366)
T Consensus 105 ~~i~~~~~~SYRdLPlrl~q~g~~~R~E~s~~~gL~RvReF~~dDahs~~~t~eq~~~e~~~~~~~y~~i~~~l~~~~-~ 183 (261)
T cd00778 105 YPMFSKWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHATEEEAEEEVLQILDLYKEFYEDLLAIP-V 183 (261)
T ss_pred HHHHHHHHCCCCCCCHHHHHCCCEECCCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCEE-E
T ss_conf 999973505402278255530422437788887653254252342336558999999999999999999999847815-7
Q ss_pred EEEEEEC--CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCC---CCC-----CEEEEEEECCH
Q ss_conf 2645423--8898526610367875058804224688348984575638889985698---800-----03799631344
Q gi|254780317|r 255 QMRFRPS--FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGI---DPD-----IYQGFAWGMGL 324 (366)
Q Consensus 255 ~~r~rp~--~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~---d~~-----~~~g~AfG~G~ 324 (366)
T Consensus 184 ~~~~~~~~dk~~Ga~y~~~id~~~----------~dgr~~q~gti~~l~~~~s~~f~l~y~~~dg~~~~phr~-~~G~~- 251 (261)
T cd00778 184 VKGRKTEWEKFAGADYTYTIEAMM----------PDGRALQSGTSHNLGQNFSKAFDIKYQDKDGQKEYVHQT-SWGIS- 251 (261)
T ss_pred EEECCCHHCCCCCCCCCEEEEEEC----------CCCCEEEEEHHHHCCCCHHHHCCCEEECCCCCCCCCEEE-EEEHH-
T ss_conf 860565211167851000147874----------788704675102027653563798999999998085574-12499-
Q ss_pred HHHHHHHCC
Q ss_conf 699799738
Q gi|254780317|r 325 DRIAMLKYG 333 (366)
Q Consensus 325 eRlaml~~g 333 (366)
T Consensus 252 eR~ig~lI~ 260 (261)
T cd00778 252 TRLIGAIIM 260 (261)
T ss_pred HHHHHHHHC
T ss_conf 899889734