HHsearch alignment for GI: 254780882 and conserved domain: cd01196
>cd01196 INT_VanD VanD integrase, IntD, and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases including those similar to IntD, a putative integrase-like protein, a component of the vanD glycopeptide resistance cluster in Enterococcus faecium BM4339. Members of this CD are predominantly bacterial in origin.
Probab=100.00 E-value=0 Score=395.73 Aligned_cols=260 Identities=18% Similarity=0.287 Sum_probs=218.0
Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999986254889999999999999999985121478878968989999999999998612101332112344422223
Q gi|254780882|r 21 WLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRTQKIGDRSLKRSLSGIKSFLK 100 (328)
Q Consensus 21 ~L~~l~~~r~~s~~T~~~Y~~~l~~f~~~~~~~~~~~~~~~~~~~i~~~~i~~~l~~l~~~~~s~~T~~~~ls~lr~f~~ 100 (328)
T Consensus 1 F~~yL~-e~g~S~~Ti~sY~~dl~~ff--~~-----------~~~i~~~~i~~y~~~L~~-~~~~~Tin~~lsalr~F~~ 65 (263)
T cd01196 1 FEEYLY-KNNLSKNTVSSYLRTVVQYF--LN-----------GKELTKPNLLEYKGYLQE-NFKAQTVNLRLQGINKYLE 65 (263)
T ss_pred CHHHHH-HCCCCHHHHHHHHHHHHHHH--CC-----------CCCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHH
T ss_conf 958796-76978999999999999997--15-----------588999999999999996-8989999999999999999
Q ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 33210123222222222222221211111110156787765310135677577532012221001123322222112222
Q gi|254780882|r 101 YLKKRKITTESNILNMRNLKKSNSLPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQN 180 (328)
Q Consensus 101 ~~~~~~~i~~np~~~i~~~k~~~~~p~~lt~~e~~~ll~~~~~~~~~~~~~~~~Rd~~i~~ll~~TGlR~~El~~L~~~d 180 (328)
T Consensus 66 fl~~~~~~----~k-~~k~~~~~~l~~~l~~~e~~~l~~~~~~~~-------~~r~~~ii~lL~~tGlRvsEl~~L~~~d 133 (263)
T cd01196 66 FIGWHDLK----LK-FVKVQQKAFLENVISDADYKFLKTALKADG-------NEEWYFVVWFLAATGARVSELIHIKVEH 133 (263)
T ss_pred HHHHCCCC----CC-CCCCCCCCCCCCCCCHHHHHHHHHHHCCCC-------CHHHHHHHHHHHHHCCHHHHHHCCCHHH
T ss_conf 96554786----55-678888899999899999999997631366-------7769999999998499999998368988
Q ss_pred CCCCCCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCC-CC
Q ss_conf 23323220332378531000112210023432211100123446655432111122111000123567899976869-99
Q gi|254780882|r 181 IMDDQSTLRIQGKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLNIQLPLFRGIRGKPLNPGVFQRYIRQLRRYLGLP-LS 259 (328)
Q Consensus 181 id~~~~~i~v~gKg~K~R~Vpi~~~~~~~l~~yl~~~~~~~~~~~~~~lF~~~~g~~ls~~~i~~~~~~~~~~~gi~-~~ 259 (328)
T Consensus 134 i~~~--~~~i~~KG~K~R~v~i~~~~~~~l~~y~~~~~-----~~~~~lF~~~~g~~l~~~~i~~~~k~~~~~agi~~~~ 206 (263)
T cd01196 134 VQTG--YADIYSKGGKIRRLYIPKNLRVEALKWLKELN-----LDSGYIFLNRFGKPITARGIAQQLKNYAAKYKMNPRV 206 (263)
T ss_pred HCCC--CEEEEECCCCEEEEEECHHHHHHHHHHHHHCC-----CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
T ss_conf 2668--64999559937887307999999999999728-----8657716699949888999999999999985999877
Q ss_pred CCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHCHHHHHHHHHHHH
Q ss_conf 8805417999999998489988999983788878979999619899999999999
Q gi|254780882|r 260 TTAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQIYTNVNSKNGGDWMMEIY 314 (328)
Q Consensus 260 ~spH~lRHtfAt~ll~~G~~~~~v~~~lGH~s~~tT~~Y~h~~~~~~~~~l~~~~ 314 (328)
T Consensus 207 ~~PH~lRHtfAt~ll~~g~dl~~vq~lLGH~si~TT~iY~~~~~~~~k~~~~k~~ 261 (263)
T cd01196 207 VYPHSFRHLFAKNFLAKYNDLALLADLMGHESIETTRIYLRKTATEQQRIVDKIV 261 (263)
T ss_pred CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHC
T ss_conf 8872269999999998699999999995899878999988079999999999870