HHsearch alignment for GI: 254780282 and conserved domain: PRK11139
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional.
Probab=100.00 E-value=0 Score=387.80 Aligned_cols=286 Identities=25% Similarity=0.325 Sum_probs=251.4
Q ss_pred C-CHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCEEEEECCCCEEEEECCCCCCCCCCCCCCCCCHHH
Q ss_conf 8-889999999999827689999882899789999999999995882179769946850013433222222222210122
Q gi|254780282|r 3 F-DWDKLRVFYVVARSGSFTHAAEQLHLSQSSISRQISGLETEVGIKLFYRHARGLTLTEQGSKLHRVTSEVYHKLETTQ 81 (299)
Q Consensus 3 m-d~~~L~~f~~v~~~gs~s~AA~~L~itq~avS~~i~~LE~~lg~~Lf~R~~~~~~lT~~G~~l~~~a~~~l~~~~~~~ 81 (299)
T Consensus 5 ~~~L~~L~~F~aVa~~gS~s~AA~~L~~sqsaVS~~I~~LE~~lG~~Lf~R~~r~~~lT~~G~~l~~~a~~il~~~~~~~ 84 (295)
T PRK11139 5 LPPLNALRAFEAAARHLSFTRAAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQRYFLDIREAFDQLAEAT 84 (295)
T ss_pred CCCHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCEEECCCCEEECHHHHHHHHHHHHHHHHHHHHH
T ss_conf 94979999999999839999999998869889999999999985984489889953680999999999999999999999
Q ss_pred HHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 10012232222223332111000000000135667542000122222222222222222222345654321111223455
Q gi|254780282|r 82 IELQESSVKPSGKLRIATTIDLGQNLLQGNLKEFLLLYPDIQIQLILDNKDIDISMDYADCAIRLRKPIQSSSLIQRKLV 161 (299)
Q Consensus 82 ~~~~~~~~~~~g~i~I~~~~~~~~~~l~~~l~~f~~~~P~i~i~i~~~~~~~~l~~~~~Di~i~~~~~~~~~~l~~~~l~ 161 (299)
T Consensus 85 ~~~~~--~~~~g~l~I~~~~~~~~~~l~p~l~~f~~~~P~i~v~l~~~~~~~~l~~~~~Diai~~~~-~~~~~l~~~~l~ 161 (295)
T PRK11139 85 RKLRA--RSAKGALTVSLLPSFAIKWLVPRLSSFNEAHPDIDVRLQAVDRLEDFLRDDVDVAIRYGR-GNWPGLRVEKLL 161 (295)
T ss_pred HHHHH--HCCCCEEEEEEECCHHHHHHHHHHHHHHHCCCCEEEEEEECCCHHHHHCCCCEEEEEEEC-CCCCCEEEEEEE
T ss_conf 99753--077873999996322777633466666610885899999624166663347438999723-776762799940
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCEEEECCCCHHHHHHHHHCCE
Q ss_conf 54332112344321112222221100011235664332110002356652022343212114532420013567873842
Q gi|254780282|r 162 TIHMHAYAAPHYLKNCREPLSIQELDKHNLITFGDLIPKCMEDFNWLATVDRPIGEPRISCLQVNSYLSIMQYCVLGSGI 241 (299)
Q Consensus 162 ~~~~~~v~~~~~~~~~~~~~~~~dL~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~v~~g~Gi 241 (299)
T Consensus 162 ~~~~~~vasp~~~~~~~~~~~~~dL~~~~li~~~~~----~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~G~Gi 236 (295)
T PRK11139 162 DEYLFPVCSPALLNGGKPLKTPEDLARHTLLHDDSR----EDWRAWFRAAG-LNDINVQQGPIFSHSSMALQAAIHGQGV 236 (295)
T ss_pred CCEEEEEECHHHHHHCCCCCCHHHHHCCCEEEECCC----CHHHHHHHHCC-CCCCCCCCCEEECCHHHHHHHHHHCCEE
T ss_conf 446999988799964799999999818987963696----21588998569-8654678752887899999999959929
Q ss_pred EEEEHHHHCC---CCCEEEECCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHC
Q ss_conf 3311777601---998466177666766008999348778888999999999999850
Q gi|254780282|r 242 ALLPDYIVKD---NPNLVRIMEDVITPSFTVYFCYPEALKNTGKLKAFRNFIFLKARD 296 (299)
Q Consensus 242 a~lp~~~~~~---~~~lv~i~~~~~~~~~~~~lv~~~~~~~~~~~~~f~d~l~~~~r~ 296 (299)
T Consensus 237 a~lp~~~v~~~l~~G~Lv~~l~~~~~~~~~~~lv~~~~~~~~p~v~~F~~~L~~~~~~ 294 (295)
T PRK11139 237 ALGRRVLAQPEIEAGRLVCPFDIVLPSKNAFYLVCPPSQAELPKVAAFRQWLLAEAAQ 294 (295)
T ss_pred EECCHHHHHHHHHCCCEEEECCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf 9777999999987899799898666788759999808987898999999999998536