HHsearch alignment for GI: 255764470 and conserved domain: cd04611
>cd04611 CBS_pair_PAS_GGDEF_DUF1_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. 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. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CB
Probab=99.34 E-value=3.2e-11 Score=100.99 Aligned_cols=107 Identities=21% Similarity=0.289 Sum_probs=95.2
Q ss_pred CEEEEEECCCCHHHHHHHHHHCCCCEEEEECCCCCCEEEEEEHHHHHHHHHCCCC--CHHHHHH-CCCEEECCCCCHHHH
Q ss_conf 0289960899989999999857997888876785527888888887620202466--0168873-274352389998999
Q gi|255764470|r 314 TEIVWLDVNCVDEDLQWKILELGHSRFPVAQGSLDSFIGIVSARDLLRDLLEEGS--MNFKRSI-RKPLVVHENISVLKL 390 (523)
Q Consensus 314 ~~i~~ld~~~s~~e~~~~i~~~~~SR~PV~~~~~D~iiGiv~~kDLl~~~~~~~~--~~~~~li-r~~~~Vpe~~~l~~l 390 (523)
T Consensus 1 t~vvTv~p~~tv~ea~~~m~~~~i~~~~V~~~--~~~vGiiT~~Di~~~~~~~~~~~~~v~~iM~~~~~tv~~~~~~~~a 78 (111)
T cd04611 1 TQILTCPPDTSLAEAASRMRERRISSIVVVDD--GRPLGIVTERDILRLLASGPDLQTPVGEVMSSPLLTVPADTSLYDA 78 (111)
T ss_pred CCCEEECCCCCHHHHHHHHHHHCCCEEEEEEC--CEEEEEEEEHHHHHHHHHCCCCCCCHHHHHCCCCEEEECCCCHHHH
T ss_conf 97199889697999999999719988999979--9999999855989987424887788899710683399789999999
Q ss_pred HHHHHHCCCEEEEEECCCCCEEEEEEHHHHHH
Q ss_conf 99885038627775228674256525999999
Q gi|255764470|r 391 MERLRKSSQTFVMVLDEYGVLEGMITPANILE 422 (523)
Q Consensus 391 L~~fr~~~~~lAiVvDE~G~~~GIVTleDIlE 422 (523)
T Consensus 79 ~~~m~~~~i~~lpVvd~~~~~vGiiT~~Dilr 110 (111)
T cd04611 79 RQLMREHGIRHLVVVDDDGELLGLLSQTDLLQ 110 (111)
T ss_pred HHHHHHHCCEEEEEECCCCEEEEEEEHHHHHC
T ss_conf 99999718739999946998999998568427