HHsearch alignment for GI: 254780332 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=96.80 E-value=0.057 Score=34.45 Aligned_cols=136 Identities=17% Similarity=0.207 Sum_probs=70.8
Q ss_pred EECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHH--HHHH--CCCCCCCCCCC
Q ss_conf 6213100276999999999985101112333332124797589995852179998789999--8741--01100012137
Q gi|254780332|r 224 IAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISE--QTEV--PSSKIRRGELT 299 (504)
Q Consensus 224 iaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~el~~R~is~--~s~I--~~~~i~~g~l~ 299 (504)
T Consensus 7 ~~~KGG~GKtT~a~~la~~~~~---------------~g~~V~liD~Dp--q~s~~~W~~~a~~~~~~~~~~~v~----~ 65 (231)
T pfam07015 7 CSFKGGAGKTTALMGLCSALAS---------------DGKRVALFEADE--NRPLTKWRENALRKGTWDPACEIF----N 65 (231)
T ss_pred EECCCCCCHHHHHHHHHHHHHH---------------CCCEEEEEECCC--CCCHHHHHHHHHHCCCCCCCCCEE----C
T ss_conf 6179986599999999999996---------------899599996899--868899999876468888765222----0
Q ss_pred HHHHHHHHHHHHHH--HHCCEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEECCHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 68899899999998--6278078258998899999988640224447467767135325664432113788999999999
Q gi|254780332|r 300 RPDYEKIVACSQVM--QKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALK 377 (504)
Q Consensus 300 ~~e~~~i~~a~~~l--~~~~l~I~d~~~~ti~~I~~~~r~~~~~~gi~~vvIDYLqli~~~~~~~~~r~~~i~~is~~lK 377 (504)
T Consensus 66 ~~~~~~l~~~~~~~~~~~yD~VIIDtpg-~~s~~~~~AI~~-----ADlVLIP----~qpSplD----~~~a~~t~~~i~ 131 (231)
T pfam07015 66 ADELPLLEQAYEHAEGSGFDYALADTHG-GSSELNNTIIAS-----SDLLLIP----TMLTPLD----IDEALATYRYVI 131 (231)
T ss_pred CCCHHHHHHHHHHHHHCCCCEEEECCCC-CCCHHHHHHHHH-----CCEEEEC----CCCCHHH----HHHHHHHHHHHH
T ss_conf 5660158999998865799989983998-575899999997-----8989977----8998233----999999999999
Q ss_pred HH--HHHHCCCE-EEEEECC
Q ss_conf 99--98827919-9977138
Q gi|254780332|r 378 AL--AKELNIPI-IALSQLS 394 (504)
Q Consensus 378 ~l--A~e~~ipv-i~lsQLn 394 (504)
T Consensus 132 ~~~~~~~~~ip~avl~tRv~ 151 (231)
T pfam07015 132 ELLLTENLAIPTAILRQRVP 151 (231)
T ss_pred HHHHHHCCCCCEEEEEEECC
T ss_conf 99997378998033455114