HHsearch alignment for GI: 254780877 and conserved domain: TIGR00635
>TIGR00635 ruvB Holliday junction DNA helicase RuvB; InterPro: IPR004605 All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.; GO: 0003677 DNA binding, 0005524 ATP binding, 0009378 Holliday junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=98.91 E-value=8.9e-09 Score=90.28 Aligned_cols=160 Identities=25% Similarity=0.380 Sum_probs=85.3
Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCCC------CEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHHHCCC
Q ss_conf 8533333578999999963367778------6689528874077799999998734899844457437887313542174
Q gi|254780877|r 176 KLDPVIGRDDEMRRAIQVLSRRTKN------NPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGA 249 (853)
Q Consensus 176 kLDPVIGRe~EI~~~~~iL~r~~k~------n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~ 249 (853)
T Consensus 2 ~L~eFiG-Q~~vk~~L~l~I~AAk~R~e~LDH~LL~GPPGLGKTTLA~IiA~Emg~~--------l~iTsG--P~L~--- 67 (305)
T TIGR00635 2 LLAEFIG-QEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--------LKITSG--PALE--- 67 (305)
T ss_pred CCHHCCC-CHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCC--------CEEEEC--CCCC---
T ss_conf 8011058-2889999999999998248973416631756874678999999983893--------267406--7554---
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCCEEEEECCHH--------------------HHCCCCCCCC--CCCHHHHHHHHHCCCC
Q ss_conf 54202454589999998607997699963627--------------------7302666554--3358888765312466
Q gi|254780877|r 250 KFRGEFEERLKSLLCEIRSEDGEIILFIDELH--------------------VLVGAGKTDG--AMDASNLLKPSLARGE 307 (853)
Q Consensus 250 ~~rg~~e~r~~~i~~~~~~~~~~~ilfide~h--------------------~~~gaG~~~g--~~Daan~LKP~LarG~ 307 (853)
T Consensus 68 k-PgD----laaiLt~L~~---gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~IG~Gp~Ar~v~ldL----------pP 129 (305)
T TIGR00635 68 K-PGD----LAAILTNLEE---GDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVIGKGPSARSVRLDL----------PP 129 (305)
T ss_pred C-HHH----HHHHHHHCCC---CCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEEECCCCCCEEEECC----------CC
T ss_conf 7-578----9999970568---9631012565048334531053001217877871289852576068----------69
Q ss_pred EEEEEEECHHHHHHHHHCCHHHHHCCCEE-ECCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 04899744899999730011132023111-1157776789999999789865414961015899999863
Q gi|254780877|r 308 LHCIGATTLDEYRKYIEKDPALARRFQSL-LVGEPTVTDTISILRGLKERYEQHHKVRISDSALVSAAVL 376 (853)
Q Consensus 308 l~~IgaTT~~Eyrk~iEkD~Al~RRFq~i-~V~Eps~~~t~~iL~gl~~~yE~~H~V~i~d~al~~av~l 376 (853)
T Consensus 130 FTLvGATTR~G~--lt---~PLrdRFG~~~rl~fY~~~EL~~Iv~R~A~~----L~~ei~~~~a~~IArr 190 (305)
T TIGR00635 130 FTLVGATTRAGM--LT---SPLRDRFGIILRLEFYTPEELAEIVSRSAGL----LNIEIEQEAALEIARR 190 (305)
T ss_pred CCCCCCCCCCCC--CC---CCHHHHHHHHHHCCCCCHHHHHHHHHHHHHH----CCCCCCHHHHHHHHHH
T ss_conf 442000034774--10---3133454474540268987899998753344----1430077899999875