HHsearch alignment for GI: 254781004 and conserved domain: cd00772

>cd00772 ProRS_core 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.
Probab=100.00  E-value=0  Score=424.30  Aligned_cols=241  Identities=19%  Similarity=0.250  Sum_probs=202.1

Q ss_pred             CCCCEEEEECCHHHHHHHHHHHHHHHHHC-CCEEEECCCCCCCCCCCCCCCCCCCCC-CCCEEECCCCCCCCCCEEEECC
Q ss_conf             78743565010789999999999988768-963855543244310001121001255-5420100145677782377434
Q gi|254781004|r  261 DGSGVIFWHRKGWKIFQTLISYMRRKIKD-DYEEINTPQVLDQHLWQQSGHWDSYRA-NMFAVKCADDTIKDLRTFALKP  338 (652)
Q Consensus       261 ~~~G~~~wlP~G~~i~~~ie~~ir~~~~~-G~~eV~tP~l~~~~Lw~~SGh~~~y~~-~mf~~~~~~~~~~~~~~~~LkP  338 (652)
T Consensus        20 ~~~G~~~~lP~G~~i~~ki~~~i~~e~~~~G~qev~~P~l~p~~lw~ksgr~~~~~~~e~~~~~~-~~~~~~e~~~~L~P   98 (264)
T cd00772          20 PGRGIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELAVFKD-AGDEELEEDFALRP   98 (264)
T ss_pred             CCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHCCCHHHCCCCCEEEEEE-CCCCCCCCCCCCCC
T ss_conf             98875888905999999999999999998299498125679989999769844437852379973-48742123520167


Q ss_pred             CCHHHHHHHHHHCCCCHHHCCHHHHHHEEEECCCCCCCCEEEEECCCCCCCCCEEE-CCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             31257777652012222310432000100012787645200010563533442101-05376788789999998876655
Q gi|254781004|r  339 MNCPGHVAVFNHGLKSYRELPVRLAEFGSVYRNEPSGSLHGLMRVRGFTQDDAHVF-CTKEQMFNECLKIHNLIISIYKD  417 (652)
Q Consensus       339 mncp~h~~i~~~~~~SYrdLPlrl~e~~~~~R~E~sg~l~GL~R~ReF~~~Dah~F-~~~eq~~~e~~~~~~~~~~v~~~  417 (652)
T Consensus        99 T~Ee~~~~~~~~~i~SyrdLPl~lyQ~~~~fR~E~r~-r~GllR~REFlmkDahsf~~t~e~a~~~y~~~~~~Y~~if~~  177 (264)
T cd00772          99 TLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEIRP-RFGFLRAREFIMKDGHSAHADAEEADEEFLNMLSAYAEIARD  177 (264)
T ss_pred             CCCHHHHHHHHHHCCCHHHCCHHHHHHHHHHHCCCCC-CCCCHHHEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7868999999864076655797787655786057885-543323204341103532599999999999999999999999


Q ss_pred             HCCCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCC
Q ss_conf             21332100014653112586035778999999999850212125667520555555455432110021103310012110
Q gi|254781004|r  418 FGFEKIMVKLSTRPEKRVGSDALWDDAENIMKGVLDTIKNSSQDRINTGVLLGEGAFYGPKFEYILKDAIGRDWQCGTIQ  497 (652)
Q Consensus       418 ~g~~~~~~~ls~~~~~~~g~~~~~~~ae~~l~~~l~~~~~~~~~~~~~~~~~g~~afygpkid~~~~d~~gr~~~~~tiq  497 (652)
T Consensus       178 lg~lp~~~~~~~~g~kf~Ga~~s~ef--------------------~~~~~~G~~---------------~~~ev~H~f~  222 (264)
T cd00772         178 LAAIDFIEGEADEGAKFAGASKSREF--------------------EALMEDGKA---------------KQAETGHIFG  222 (264)
T ss_pred             HCCCCCEEEECCCCCCCCCCEEEEEE--------------------EEECCCCCC---------------CEEEEEEECC
T ss_conf             66985167644778856885016899--------------------998788871---------------3644688815


Q ss_pred             HHHHCCCCCCCEEEEECCCEEEEEEEEECCCH-HHHHHHHHHHHH
Q ss_conf             11102234674167317972137996403410-378999999997
Q gi|254781004|r  498 VDFNLPSRFNAFYVNSHSEKCHPVMIHRAVFG-SIERFIGIMIEN  541 (652)
Q Consensus       498 ~df~~p~~f~l~y~~~dg~~~~pvmihr~~~G-s~eR~ia~liE~  541 (652)
T Consensus       223 ~g~~~s~~~~~~f~~~dg~~~~v~m---~syGIgitRligaiIeq  264 (264)
T cd00772         223 EGFARAFDLKAKFLDKDGKEKFFEM---GCWGIGISRFIGAIIEQ  264 (264)
T ss_pred             CCCCEECCCCCEEECCCCCEEEEEE---CCCCCHHHHHHHEEECC
T ss_conf             7850122566578889999822580---36778177444405529