HHsearch alignment for GI: 254780334 and conserved domain: cd01125
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=99.46 E-value=4.6e-12 Score=107.56 Aligned_cols=181 Identities=24% Similarity=0.309 Sum_probs=111.1
Q ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHCC------------CCCEEEEECCCCHHHHHHHHHHCCC----C--CCCHHE--
Q ss_conf 7089995498751889999999998503------------9819999864630478888752015----7--751000--
Q gi|254780334|r 90 GSVILVGGDPGIGKSTLLMQTAASLAYK------------KHRITYVSGEEAIGQIRLRAQRLNT----I--NSSVYI-- 149 (479)
Q Consensus 90 Gs~~Li~G~PGvGKSTL~Lqia~~~a~~------------g~~vlYvS~EEs~~Qi~~Ra~Rl~~----~--~~~i~~-- 149 (479)
T Consensus 1 G~v~~l~g~gG~GKS~lal~lAl~vA~G~~~~g~~~~~~~~G~Vly~~~Ed~~~~l~rRl~a~~~~~~~~~~~~rl~~~~ 80 (239)
T cd01125 1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDS 80 (239)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCEEECC
T ss_conf 93899980899888999999999997599656898546877619999788998999999999998638665554166415
Q ss_pred --------ECC------CCHHHHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf --------034------788999999973169828997216876654204455636799999999999753079789998
Q gi|254780334|r 150 --------AIE------TNVEDIIATLITNEKPDLVIIDSIQTLWSQTAESSPGTVIQVRTSVQAMIQYAKKNGVAMVLV 215 (479)
Q Consensus 150 --------~~e------~~l~~il~~~i~~~~~~~vVIDSIQtl~~~~~~s~~GsvsQvre~~~~L~~~AK~~~i~vili 215 (479)
T Consensus 81 ~~~~~l~~~~~~~~~~~~~~~~i~~~-~~~~~~~LVViDpL~~~~~~d----ENd~~~m~~~i~~l~~ia~~tg~aVl~v 155 (239)
T cd01125 81 GRIQPISIAREGRIIVVPEFERIIEQ-LLIRRIDLVVIDPLVSFHGVS----ENDNGAMDAVIKALRRIAAQTGAAILLV 155 (239)
T ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHH-HHCCCCCEEEECCCHHHCCCC----CCCHHHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf 56664413357721014899999999-745899899983817748999----7889999999999999999719999997
Q ss_pred EEECCCCC--------CCCHHHHHHHHHEEEEE------ECCCC-----CCCCCCEEEEEEEECCC-CCCCEEEEEECCC
Q ss_conf 63036654--------33114578775302785------15556-----66544215676320256-7651279985156
Q gi|254780334|r 216 GHVTKEGQ--------IAGPRVIEHMVDAVLYF------EGGTR-----NTQYDYRILRSVKNRFG-PTDEIGVFEMSDK 275 (479)
Q Consensus 216 ghvTK~G~--------iAGp~~LeH~VD~vl~~------ege~~-----~~~~~~R~Lr~~KNRfG-~t~e~gvf~m~~~ 275 (479)
T Consensus 156 HHt~K~~~~~~~~~~a~RGaSaLvd~aR~~~~l~~m~~~ea~~~gi~~~~~~~~~r~~-~~k~n~~~~~~~~~w~~r~~g 234 (239)
T cd01125 156 HHVRKGSAKDGDTQEAARGASALVDGARWVRALTRMTSEEAEKMGVGKAQPGLFFRFG-VSKKNNAAATEADRWYRRNSG 234 (239)
T ss_pred ECCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHCCCCHHCCCCEEEEC-CCCCCCCCCCCCCCEEEECCC
T ss_conf 0688767887104434664877432354766773799999998299801068769963-431026999976614684278
Q ss_pred C
Q ss_conf 6
Q gi|254780334|r 276 G 276 (479)
Q Consensus 276 G 276 (479)
T Consensus 235 g 235 (239)
T cd01125 235 G 235 (239)
T ss_pred C
T ss_conf 3