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