HHsearch alignment for GI: 255764498 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=357.21  Aligned_cols=256  Identities=23%  Similarity=0.338  Sum_probs=216.9

Q ss_pred             CHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             64664138999999999999999997544998688999999999999997799843532210112334321000122222
Q gi|255764498|r    2 MSSERASSINTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKLVTSSQRRKISVIRQFYNFLCYEGLRKD   81 (300)
Q Consensus         2 l~~~R~~S~~T~~~Y~~~l~~f~~~~~~~~~~~~~i~~~~i~~~~~~l~~~~~s~~T~~~~~~~l~~~~~~~~~~~~~~~   81 (300)
T Consensus         5 L-~e~g~S~~Ti~sY~~dl~~f--f~~-----~~~i~~~~i~~y~~~L~~-~~~~~Tin~~lsalr~F~~fl~~~~~---   72 (263)
T cd01196           5 L-YKNNLSKNTVSSYLRTVVQY--FLN-----GKELTKPNLLEYKGYLQE-NFKAQTVNLRLQGINKYLEFIGWHDL---   72 (263)
T ss_pred             H-HHCCCCHHHHHHHHHHHHHH--HCC-----CCCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHCCC---
T ss_conf             9-67697899999999999999--715-----588999999999999996-89899999999999999999655478---


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             21222212122211122332024699998643200125610277654311000122100134333432000001111000
Q gi|255764498|r   82 NPSDTLELPKKNHILPKTLHKDTIANLLEQAKIEAENPAPGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTM  161 (300)
Q Consensus        82 np~~~i~~~k~~~~~~~~ls~~e~~~ll~~~~~~~~~~~~~~~~~~R~~~il~ll~~tGlR~~Ei~~L~~~di~~~~~~i  161 (300)
T Consensus        73 -~~k~~k~-~~~~~l~~~l~~~e~~~l~~~~~~~---------~~~r~~~ii~lL~~tGlRvsEl~~L~~~di~~~--~~  139 (263)
T cd01196          73 -KLKFVKV-QQKAFLENVISDADYKFLKTALKAD---------GNEEWYFVVWFLAATGARVSELIHIKVEHVQTG--YA  139 (263)
T ss_pred             -CCCCCCC-CCCCCCCCCCCHHHHHHHHHHHCCC---------CCHHHHHHHHHHHHHCCHHHHHHCCCHHHHCCC--CE
T ss_conf             -6556788-8889999989999999999763136---------677699999999984999999983689882668--64


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHH
Q ss_conf             11122211111000012478875323210012467775200123332222211111110123442014667642598858
Q gi|255764498|r  162 IIQGKGNKERLVILSPSALHALQMYKKTCSSMKMTGNDLWLFPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHIIR  241 (300)
Q Consensus       162 ~v~~K~~k~R~ipi~~~~~~~l~~y~~~~~~~~~~~~~~~lf~~~~~~~~~s~~~~~~~~~~~~~~~gi~~~~~t~H~lR  241 (300)
T Consensus       140 ~i~~KG~K~R~v~i~~~~~~~l~~y~~~~~-----~~~~~lF~~~-~g~~l~~~~i~~~~k~~~~~agi~~~~~~PH~lR  213 (263)
T cd01196         140 DIYSKGGKIRRLYIPKNLRVEALKWLKELN-----LDSGYIFLNR-FGKPITARGIAQQLKNYAAKYKMNPRVVYPHSFR  213 (263)
T ss_pred             EEEECCCCEEEEEECHHHHHHHHHHHHHCC-----CCCCCCCCCC-CCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHH
T ss_conf             999559937887307999999999999728-----8657716699-9498889999999999999859998778872269


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             89999999858888899998558998998999645999999999982
Q gi|255764498|r  242 HAFASHLLEGGADLRTIQILLGHTDISTTQIYTHLLPDKLQKLVQDY  288 (300)
Q Consensus       242 ht~at~l~~~G~~~~~v~~~lGH~s~~tT~~Y~~~~~~~~~~~~~~~  288 (300)
T Consensus       214 HtfAt~ll~~g~dl~~vq~lLGH~si~TT~iY~~~~~~~~k~~~~k~  260 (263)
T cd01196         214 HLFAKNFLAKYNDLALLADLMGHESIETTRIYLRKTATEQQRIVDKI  260 (263)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             99999999869999999999589987899998807999999999987