HHsearch alignment for GI: 254780711 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=98.57 E-value=1.2e-06 Score=70.94 Aligned_cols=136 Identities=21% Similarity=0.218 Sum_probs=78.2
Q ss_pred EEEEE-CCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHH---CCCC--CCCCCCCCCHHHHHHHHH
Q ss_conf 89962-34433346889999999986148950782054221004779999851---0347--422233210368999999
Q gi|254780711|r 102 VIMLV-GLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGE---QIQV--DTLEVIPEQSPEKIAIRA 175 (461)
Q Consensus 102 vIllv-Gl~GsGKTTT~aKLA~~~~~~~~~kV~lv~~Dt~R~aA~eQL~~~a~---~~~v--~~~~~~~~~dp~~i~~~a 175 (461)
T Consensus 3 vi~~~~~KGG~GKtT~a~~la~~~~~-~g~~V~liD~Dpq~s~~-----~W~~~a~~~~~~~~~~~-v~~~~~~~~l~~~ 75 (231)
T pfam07015 3 LITFCSFKGGAGKTTALMGLCSALAS-DGKRVALFEADENRPLT-----KWRENALRKGTWDPACE-IFNADELPLLEQA 75 (231)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCCCCCHH-----HHHHHHHHCCCCCCCCC-EECCCCHHHHHHH
T ss_conf 79996179986599999999999996-89959999689986889-----99998764688887652-2205660158999
Q ss_pred HHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCC-----CCHHCCHHHHHHH----HHHHHHCCCCCEE
Q ss_conf 999974158869983344222112468999999851385110003-----1011122568888----9887635844077
Q gi|254780711|r 176 TQSARDGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLV-----ADALTGQDAVHLA----RNFDKIVDLTGII 246 (461)
Q Consensus 176 ~~~a~~~~~D~iiiDTaGR~~~d~~lm~El~~i~~~~~p~e~~lV-----~da~~Gq~a~~~a----~~F~~~~~i~giI 246 (461)
T Consensus 76 ~~~~~~~~yD~VIIDtpg~~s~---~~~~AI~~A-----DlVLIP~qpSplD~~~a~~t~~~i~~~~~~~~~~ip-~avl 146 (231)
T pfam07015 76 YEHAEGSGFDYALADTHGGSSE---LNNTIIASS-----DLLLIPTMLTPLDIDEALATYRYVIELLLTENLAIP-TAIL 146 (231)
T ss_pred HHHHHHCCCCEEEECCCCCCCH---HHHHHHHHC-----CEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCC-EEEE
T ss_conf 9988657999899839985758---999999978-----989977899823399999999999999997378998-0334
Q ss_pred EEECCCC
Q ss_conf 6411576
Q gi|254780711|r 247 LTRMDGD 253 (461)
Q Consensus 247 lTKlD~~ 253 (461)
T Consensus 147 ~tRv~~~ 153 (231)
T pfam07015 147 RQRVPVG 153 (231)
T ss_pred EEECCCC
T ss_conf 5511400