HHsearch alignment for GI: 254780882 and conserved domain: TIGR02249
>TIGR02249 integrase_gron integron integrase; InterPro: IPR011946 Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family that also includes recombinases XerC (IPR011931 from INTERPRO) and XerD (IPR011932 from INTERPRO), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961.; GO: 0003677 DNA binding, 0006310 DNA recombination, 0015074 DNA integration.
Probab=100.00 E-value=0 Score=379.55 Aligned_cols=253 Identities=32% Similarity=0.448 Sum_probs=212.1
Q ss_pred HCCCHHHHHHHHHHHHHHHHH--HHHCCCCCCCCCCHHHCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 254889999999999999999--985121478878968989999999999998-61210133211234442222333210
Q gi|254780882|r 29 RGLSKLTLQSYECDTRQFLIF--LAFYTEEKITIQTIRQLSYTEIRAFISKRR-TQKIGDRSLKRSLSGIKSFLKYLKKR 105 (328)
Q Consensus 29 r~~s~~T~~~Y~~~l~~f~~~--~~~~~~~~~~~~~~~~i~~~~i~~~l~~l~-~~~~s~~T~~~~ls~lr~f~~~~~~~ 105 (328)
T Consensus 12 ~hYs~~T~~aY~~Wi~rfI~frG~~C-------~~hp~~~g~~eVeaFLs~LAv~~~Vs~sTQ~QAL~ALlFLY~~iL~~ 84 (320)
T TIGR02249 12 RHYSKRTEEAYLHWIKRFIRFRGHNC-------LRHPSTLGDTEVEAFLSDLAVDGKVSASTQNQALAALLFLYKEILKL 84 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCC-------CCCHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf 88789999999999999998850510-------13853307567888856776425747657999999999999998468
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-HCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 1232222222222222212111111101567877653-101356775775320122210011233222221122222332
Q gi|254780882|r 106 KITTESNILNMRNLKKSNSLPRALNEKQALTLVDNVL-LHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQNIMDD 184 (328)
Q Consensus 106 ~~i~~np~~~i~~~k~~~~~p~~lt~~e~~~ll~~~~-~~~~~~~~~~~~Rd~~i~~ll~~TGlR~~El~~L~~~did~~ 184 (328)
T Consensus 85 ~L~~---~~~~~Ra~~~~kLPvVLT~eEV~~~l~~l~eg~y-----------~L~a~LLYGsGMRlmE~LRLRikDiDF~ 150 (320)
T TIGR02249 85 ELSL---MENFVRAKRPRKLPVVLTREEVARLLEHLEEGKY-----------RLIAKLLYGSGMRLMECLRLRIKDIDFD 150 (320)
T ss_pred CCCC---HHHCCCCCCCCCCCEECCHHHHHHHHHHCCCCCH-----------HHHHHHHCCCHHHHHHHHHCCCCEEEEC
T ss_conf 8874---2222067888737733598899999842578613-----------1122231255158988875101103433
Q ss_pred CCCEEEC-CCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCC--------------------------CCCCCCCCCC---
Q ss_conf 3220332-378531000112210023432211100123446--------------------------6554321111---
Q gi|254780882|r 185 QSTLRIQ-GKGDKIRIVPLLPSVRKAILEYYDLCPFDLNLN--------------------------IQLPLFRGIR--- 234 (328)
Q Consensus 185 ~~~i~v~-gKg~K~R~Vpi~~~~~~~l~~yl~~~~~~~~~~--------------------------~~~~lF~~~~--- 234 (328)
T Consensus 151 ~~~I~vr~GKG~KdR~v~Lp~~L~~~L~~q~~~~~~~h~~Dl~~~G~g~V~LP~AL~rKYPnA~~~~~WqylFPs~~~S~ 230 (320)
T TIGR02249 151 YGEIRVRDGKGGKDRVVTLPKSLAPPLREQLERARALHEKDLLAEGYGGVYLPHALARKYPNASKEWGWQYLFPSARLSR 230 (320)
T ss_pred CCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEHHHHHHCCCCCCCCCCCCEEECCCCCCCC
T ss_conf 76689973668988612681755799999999999999986405885301004554215787356678766537750155
Q ss_pred ----CC----CCCCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHC
Q ss_conf ----22----111000123567899976869998805417999999998489988999983788878979999619
Q gi|254780882|r 235 ----GK----PLNPGVFQRYIRQLRRYLGLPLSTTAHTLRHSFATHLLSNGGDLRSIQSILGHFRLSTTQIYTNVN 302 (328)
Q Consensus 235 ----g~----~ls~~~i~~~~~~~~~~~gi~~~~spH~lRHtfAt~ll~~G~~~~~v~~~lGH~s~~tT~~Y~h~~ 302 (328)
T Consensus 231 DPrsG~~~RHH~~e~~~QRav~~Av~~AGI~KpvTcHTLRHSFATHLLe~G~DIRTVQelLGHsDVkTTqIYTHVL 306 (320)
T TIGR02249 231 DPRSGRIRRHHIDEKTIQRAVRRAVERAGIEKPVTCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYTHVL 306 (320)
T ss_pred CCCCCCCEEEECCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCCEEEEEE
T ss_conf 7777852001067004328999999957898867887421224430565177367898861788422463453051