HHsearch alignment for GI: 254780606 and conserved domain: cd01126

>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=95.62  E-value=0.021  Score=35.51  Aligned_cols=35  Identities=43%  Similarity=0.674  Sum_probs=27.3

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHHCCHHHEEEEEECCCC
Q ss_conf             46997078753447999999999985680110799972342
Q gi|254780606|r  414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKM  454 (744)
Q Consensus       414 H~lvaG~TgsGKS~~l~~~i~sl~~~~~p~~~~~~liD~k~  454 (744)
T Consensus         1 H~lvig~tGsGKt~~~--vip~ll~-~-~~--s~vv~D~Kg   35 (384)
T cd01126           1 HVLVFAPTRSGKGVGF--VIPNLLT-W-PG--SVVVLDPKG   35 (384)
T ss_pred             CEEEECCCCCCHHHHH--HHHHHHH-C-CC--CEEEEECCH
T ss_conf             9799889999731899--9999981-8-99--889994878