HHsearch alignment for GI: 254780889 and conserved domain: cd04588
>cd04588 CBS_pair_CAP-ED_DUF294_assoc_arch This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the archaeal CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP which binds cAMP, FNR (fumarate and nitrate reductase) which uses an iron-sulfur cluster to sense oxygen, and CooA a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. DUF294 is a putative nucleotidyltransferase with a conserved DxD motif. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site.
Probab=98.32 E-value=1.3e-06 Score=66.77 Aligned_cols=47 Identities=36% Similarity=0.600 Sum_probs=24.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCEEEEEEECCCHHC
Q ss_conf 786325730358999999986553306457479978688980210001
Q gi|254780889|r 161 RNLITVKKTVNLENAKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208 (493)
Q Consensus 161 ~~litv~~~~~l~eA~~iM~~~ki~~LPVVDe~g~LvGIIT~~DIlk~ 208 (493)
T Consensus 1 r~vvtv~p~~sl~ea~~~m~~~~i~~~pVvd-~~~lvGiit~~Di~~~ 47 (110)
T cd04588 1 KPLITLNPNATLREAARLFNTHHIHGAPVVD-DGKLVGIVTLSDIAHA 47 (110)
T ss_pred CCCEEECCCCCHHHHHHHHHHHCCCEEEEEE-CCEEEEEEEHHHHHHH
T ss_conf 9947968949899999999970998899998-9999999966898999