HHsearch alignment for GI: 254780426 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=99.56  E-value=2.4e-14  Score=113.81  Aligned_cols=109  Identities=23%  Similarity=0.328  Sum_probs=97.4

Q ss_pred             CEEEEEEECCCHHHHHHHHHHCCCCEEEEECCCCCCCCCCEEHHHHHHHHHHCCCCCCCCCCCCCCCHHHHC-CCCEEEC
Q ss_conf             129998630103677897986598179984188664224102999998766223564322333457678851-5657971
Q gi|254780426|r   97 VSINAVEDKATVYEAMLMFEKYGRSWMPVYKNSLDNPRGMVHMRDVISYISHMYAKTNNINLNIQLSESNLI-KNILFVP  175 (320)
Q Consensus        97 ~~i~~i~~~~~~~e~~~~i~~~~~sR~PV~~~~~d~iiGiv~~kDll~~~~~~~~~~~~~~~~~~~~l~~~~-r~~~~Vp  175 (320)
T Consensus         1 t~vvTv~p~~tv~ea~~~m~~~~i~~~~V~~~~--~~vGiiT~~Di~~~~~~~~~--------~~~~v~~iM~~~~~tv~   70 (111)
T cd04611           1 TQILTCPPDTSLAEAASRMRERRISSIVVVDDG--RPLGIVTERDILRLLASGPD--------LQTPVGEVMSSPLLTVP   70 (111)
T ss_pred             CCCEEECCCCCHHHHHHHHHHHCCCEEEEEECC--EEEEEEEEHHHHHHHHHCCC--------CCCCHHHHHCCCCEEEE
T ss_conf             971998896979999999997199889999799--99999985598998742488--------77888997106833997


Q ss_pred             CCCCHHHHHHHHHCCCCCCEEEEECCCCCEEEEEHHHHHH
Q ss_conf             7885123234320135651165407766204667588999
Q gi|254780426|r  176 SSMLVSDLLTNIQESRIRMALVIDEHGGTDGLVSYEDIVS  215 (320)
Q Consensus       176 e~~~l~~lL~~m~~~~~~~aiVvDE~G~~~GiVTleDIle  215 (320)
T Consensus        71 ~~~~~~~a~~~m~~~~i~~lpVvd~~~~~vGiiT~~Dilr  110 (111)
T cd04611          71 ADTSLYDARQLMREHGIRHLVVVDDDGELLGLLSQTDLLQ  110 (111)
T ss_pred             CCCCHHHHHHHHHHHCCEEEEEECCCCEEEEEEEHHHHHC
T ss_conf             8999999999999718739999946998999998568427