HHsearch alignment for GI: 254780810 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=95.11 E-value=0.22 Score=28.26 Aligned_cols=99 Identities=19% Similarity=0.204 Sum_probs=50.0
Q ss_pred CCCEEEECCCCCCHHHHHHHHHHHHHHCCCC----------CEEEEEECCCCHHH-HHHHHHHH---------CCEEE-E
Q ss_conf 2312220487787899999999998611886----------46999950878789-99999840---------34278-2
Q gi|254780810|r 174 GQRSLIVAPPRTGKTILLQNIAHSIKKNHPE----------CYLIVLLIDERPEE-VTDMQRSV---------QGEVI-S 232 (423)
Q Consensus 174 gqr~~i~~~~~~gkt~ll~~ia~~~~~~~~~----------v~~i~~ligEr~~e-v~e~~~~~---------~~~vv-~ 232 (423)
T Consensus 1 G~v~~l~g~gG~GKS~lal~lAl~vA~G~~~~g~~~~~~~~G~Vly-~~~Ed~~~~l~rRl~a~~~~~~~~~~~~rl~~~ 79 (239)
T cd01125 1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVY-LSAEDPREEIHRRLEAILQHLEPDDAGDRLFID 79 (239)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEE-EECCCCHHHHHHHHHHHHHHCCCCCCCCCEEEC
T ss_conf 9389998089988899999999999759965689854687761999-978899899999999999863866555416641
Q ss_pred CCCCCCHHHH----HHHHHHHHHHHHHHHHCCCCEEEEEECHHHHH
Q ss_conf 3667888899----99999999999999977992899981638987
Q gi|254780810|r 233 STFDESAARH----VQVAEMVIAKAKCLVEYGLDVVILLDSITRLC 274 (423)
Q Consensus 233 st~d~~~~~~----~~~a~~a~~~a~~~~e~G~dVll~~DslTR~A 274 (423)
T Consensus 80 ~~~~~~l~~~~~~~~~~~~~~~~i~~~~~-~~~~~LVViDpL~~~~ 124 (239)
T cd01125 80 SGRIQPISIAREGRIIVVPEFERIIEQLL-IRRIDLVVIDPLVSFH 124 (239)
T ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHHH-CCCCCEEEECCCHHHC
T ss_conf 55666441335772101489999999974-5899899983817748