HHsearch alignment for GI: 254780487 and conserved domain: pfam07015
>pfam07015 VirC1 VirC1 protein. This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon which enhances T-DNA processing probably does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA.
Probab=97.54 E-value=0.0027 Score=40.09 Aligned_cols=139 Identities=18% Similarity=0.142 Sum_probs=67.7
Q ss_pred CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCEECCCCCCCHHH-HHHHHHCC---CCCCCCCCCCCCCCCHHHHHHH
Q ss_conf 9832999835898747999999999984048612013887380689-99998557---8731144300145103478899
Q gi|254780487|r 1 MKLRLVIVGTDTSVGKTIFASALVHALNAYYWKPIQSGMYEETDSK-TIHRIGRI---PKSHIIPEKWKLRTPASPHLAA 76 (217)
Q Consensus 1 M~~~i~I~GT~t~vGKT~vs~~L~~~l~~~~~KPv~~G~~~~~D~~-~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~ 76 (217)
T Consensus 1 M~-vi~~~~~KGG~GKtT~a~~la~~~~~~g~~-V~---liD~Dpq~s~~~W~~~a~~~~~~~-~~~~v~~~~~~~---- 70 (231)
T pfam07015 1 MQ-LITFCSFKGGAGKTTALMGLCSALASDGKR-VA---LFEADENRPLTKWRENALRKGTWD-PACEIFNADELP---- 70 (231)
T ss_pred CC-EEEEEECCCCCCHHHHHHHHHHHHHHCCCE-EE---EEECCCCCCHHHHHHHHHHCCCCC-CCCCEECCCCHH----
T ss_conf 93-799961799865999999999999968995-99---996899868899999876468888-765222056601----
Q ss_pred HHHHCCCHHHHHHH-HHHCCEEEEECCCCCCCCCCCCCCHHHHHHHHCCCEEEEECCCCCH--HHHHHHHHHHHH-----
Q ss_conf 98502350788642-2328879992276555667675308999997479448970577650--457999999998-----
Q gi|254780487|r 77 EIDGVIIDPATINP-PDINDSIIIEGIGGLLVPLTTEYLFIDLIERWQFPIILCARTSLGT--INHSLLSLETLR----- 148 (217)
Q Consensus 77 ~~~~~~i~~~~~~~-~~~~D~viIEGagg~~~~~~~~~~~~dla~~l~~~vILV~~~~~g~--i~~~~l~~~~~~----- 148 (217)
T Consensus 71 -----~l~~~~~~~~~~~yD~VIIDtpg~~s------~~~~~AI~--~ADlVL-IP~qpSplD~~~a~~t~~~i~~~~~~ 136 (231)
T pfam07015 71 -----LLEQAYEHAEGSGFDYALADTHGGSS------ELNNTIIA--SSDLLL-IPTMLTPLDIDEALATYRYVIELLLT 136 (231)
T ss_pred -----HHHHHHHHHHHCCCCEEEECCCCCCC------HHHHHHHH--HCCEEE-ECCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf -----58999998865799989983998575------89999999--789899-77899823399999999999999997
Q ss_pred -HCCCEEEEEEECCCCC
Q ss_conf -4799079999769778
Q gi|254780487|r 149 -NRNINIIGIAFIGDSM 164 (217)
Q Consensus 149 -~~g~~i~GiIlN~~~~ 164 (217)
T Consensus 137 ~~~~ip~-avl~tRv~~ 152 (231)
T pfam07015 137 ENLAIPT-AILRQRVPV 152 (231)
T ss_pred HCCCCCE-EEEEEECCC
T ss_conf 3789980-334551140