HHsearch alignment for GI: 254780263 and conserved domain: cd03691

>cd03691 BipA_TypA_II BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secretion.
Probab=99.25  E-value=3.4e-12  Score=94.64  Aligned_cols=82  Identities=32%  Similarity=0.440  Sum_probs=69.9

Q ss_pred             CCEECCCCCCCCCCCCCEEEEEEECCCCCCCEEEEEECCCCCCCEEEECCCCC----CCCCCCCCCCHHHHHHHCCCCCC
Q ss_conf             10000000135544543014874245348967999506874321254121001----21144321001366641124543
Q gi|254780263|r  208 FLMHIEGSCGIEGRGTVVTGCIKRGRIKAGSDVEIIGMGGKKLKVKCTDVEMF----RKKLDEAIAGDNVGLLLRGVNRA  283 (392)
Q Consensus       208 ~r~~I~~vf~i~g~G~Vv~GrV~sG~l~~Gd~i~i~p~~~~~~~~kv~si~~~----~~~v~~a~aGd~v~l~Lkgi~~~  283 (392)
T Consensus         1 f~mlv~~~~~d~~~Gri~~~RV~sG~lk~gd~v~~~~~~~~~~~~rv~~l~~~~g~~~~~v~~a~AGDIvai~--G--l~   76 (86)
T cd03691           1 LQMLVTTLDYDDYVGRIAIGRIFRGTVKVGQQVAVVKRDGKIEKAKITKLFGFEGLKRVEVEEAEAGDIVAIA--G--IE   76 (86)
T ss_pred             CCEEEEEEECCCCCCEEEEEEEECCCCCCCCEEEEECCCCCEEECCCEEEEEEECCCCEEEEEECCCCEEEEC--C--CC
T ss_conf             9689998101887755999998469517999899961678267622307689606985697187599999994--8--88


Q ss_pred             EEECHHEEEC
Q ss_conf             2202117732
Q gi|254780263|r  284 DVPRGRVVCA  293 (392)
Q Consensus       284 di~rGdvl~~  293 (392)
T Consensus        77 ~~~iGdTl~D   86 (86)
T cd03691          77 DITIGDTICD   86 (86)
T ss_pred             CCCCCCCCCC
T ss_conf             8865471369