HHsearch alignment for GI: 254780882 and conserved domain: cd01187

>cd01187 INT_SG4 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available.
Probab=100.00  E-value=0  Score=390.72  Aligned_cols=284  Identities=20%  Similarity=0.189  Sum_probs=237.9

Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999998625488999999999999999998512147887896898999999999999861210133211234
Q gi|254780882|r   14 LLKERQNWLQNLEIERGLSKLTLQSYECDTRQFLIFLAFYTEEKITIQTIRQLSYTEIRAFISKRRTQKIGDRSLKRSLS   93 (328)
Q Consensus        14 l~~~~e~~L~~l~~~r~~s~~T~~~Y~~~l~~f~~~~~~~~~~~~~~~~~~~i~~~~i~~~l~~l~~~~~s~~T~~~~ls   93 (328)
T Consensus         1 l~~~i~~yl~~~r~-~G~~~~t---~~~~L~~F~~fl~~~~--------~~~~~~~~~~~w~~~--~~~~s~~t~~~rls   66 (299)
T cd01187           1 LRQALEEYIALRRA-LGYKYRT---PARLLRDFVRFLERHG--------AGFITTDLALRWAAS--PPSAQPATWAGRLG   66 (299)
T ss_pred             CHHHHHHHHHHHHH-CCCCHHH---HHHHHHHHHHHHHHCC--------CCCCCHHHHHHHHHH--CCCCCHHHHHHHHH
T ss_conf             96999999999998-7998156---8999999999998679--------988899999999987--79998899999999


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             44222233321012322222222222222121111111015678776531013567757753201222100112332222
Q gi|254780882|r   94 GIKSFLKYLKKRKITTESNILNMRNLKKSNSLPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEA  173 (328)
Q Consensus        94 ~lr~f~~~~~~~~~i~~np~~~i~~~k~~~~~p~~lt~~e~~~ll~~~~~~~~~~~~~~~~Rd~~i~~ll~~TGlR~~El  173 (328)
T Consensus        67 ~lr~F~~~l~~~g~~~~~P~~~~~~~k~~~~~P~~lt~~Ei~~Ll~a~~~~~-~~~~~~~~~~~~l~~Lly~tGlR~sEl  145 (299)
T cd01187          67 VVRRFARHRRRADPRTEVPPADLFPRRPRRPTPYIYTDEEIQRLLAAALQLP-PTSGLRPWTYRTLFGLLAVTGLRLGEA  145 (299)
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHHHHCCHHHHH
T ss_conf             9999999999869956690765457899999999999999999984110169-961057689999999999958889998


Q ss_pred             CCCCCCCCCCCCCCEEEC-CCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHH---HHHHH
Q ss_conf             211222223323220332-37853100011221002343221110012344665543211112211100012---35678
Q gi|254780882|r  174 LSLTPQNIMDDQSTLRIQ-GKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLNIQLPLFRGIRGKPLNPGVFQ---RYIRQ  249 (328)
Q Consensus       174 ~~L~~~did~~~~~i~v~-gKg~K~R~Vpi~~~~~~~l~~yl~~~~~~~~~~~~~~lF~~~~g~~ls~~~i~---~~~~~  249 (328)
T Consensus       146 ~~L~~~Dvd~~~~~i~v~~gKg~K~R~Vpl~~~~~~~L~~yl~~r~~~~~~~~~~~lF~~~~g~~l~~~~~~~~~~~~r~  225 (299)
T cd01187         146 LRLRLSDVDLDSGILTVRDSKFGKSRLVPLHASTRAALRDYLARRDRLLPAPDSSAFFVSSRGGRLSYGGHRVFYALSRE  225 (299)
T ss_pred             HCCCCCCCCCCCCEEEEECCCCCCEEEEECCHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHH
T ss_conf             03343305676784765418899707985669999999999998476426898986745899897877789999999999


Q ss_pred             HHHHCCC--CCCCCCCCCHHHHHHHHH----HCCCCHH----HHHHHHCCCCHHHHHHHHHHCHHHHHHHHHH
Q ss_conf             9997686--999880541799999999----8489988----9999837888789799996198999999999
Q gi|254780882|r  250 LRRYLGL--PLSTTAHTLRHSFATHLL----SNGGDLR----SIQSILGHFRLSTTQIYTNVNSKNGGDWMME  312 (328)
Q Consensus       250 ~~~~~gi--~~~~spH~lRHtfAt~ll----~~G~~~~----~v~~~lGH~s~~tT~~Y~h~~~~~~~~~l~~  312 (328)
T Consensus       226 ~~~~~~~~~~~~~~pH~LRHtfAt~~l~~~~~~G~di~~~L~~lq~~LGH~si~tT~~Y~h~~~e~l~~a~~r  298 (299)
T cd01187         226 IGLRGWAQRGRGPRLHDLRHRFAVTRLTRWYRAGADVERKLPVLATYLGHANITDTYWYLHASPELMELAARR  298 (299)
T ss_pred             HHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHH
T ss_conf             9986066668999976571389999999998679973433999999748998688898880399999999850