HHsearch alignment for GI: 254780889 and conserved domain: cd04800

>cd04800 CBS_pair_CAP-ED_DUF294_PBI_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) 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. The PB1 domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pa
Probab=99.78  E-value=1.1e-18  Score=153.44  Aligned_cols=106  Identities=38%  Similarity=0.544  Sum_probs=97.1

Q ss_pred             CCCEEEECCCCHHHHHHHHHHHCCCCEEEECCCCEEEEEEEEHHHHCC-----CCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             287899465430345656676050416786688602788723545001-----434467244002678632573035899
Q gi|254780889|r  100 VNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRF-----ASNAQQAVGELMTRNLITVKKTVNLEN  174 (493)
Q Consensus       100 ~dPVti~pd~TI~ea~~lm~~~~is~iPVVD~~~gkLiGIVT~rDir~-----~~~~~~~V~eiMt~~litv~~~~~l~e  174 (493)
T Consensus         1 r~~vtv~~~~tv~ea~~~m~~~~i~~v~V~~~--~~~vGiit~~Di~~~~~~~~~~~~~~v~~im~~~~~tv~~~~~l~~   78 (111)
T cd04800           1 RPPVTCSPDTTIREAARLMTEHRVSSLLVVDD--GRLVGIVTDRDLRNRVVAEGLDPDTPVSEVMTAPPITIPPDATVFE   78 (111)
T ss_pred             CCCEEECCCCCHHHHHHHHHHCCCCEEEEEEC--CEEEEEEEECHHHHHHHHCCCCCCCCHHHHCCCCCEEEECCCCHHH
T ss_conf             99989789197999999999729998999989--9999999955788998716798566588851268179988991999


Q ss_pred             HHHHHHHCCCCEEEEECCCCCEEEEEEECCCHHC
Q ss_conf             9999986553306457479978688980210001
Q gi|254780889|r  175 AKALLHQHRIEKLLVVDDDGCCIGLITVKDIERS  208 (493)
Q Consensus       175 A~~iM~~~ki~~LPVVDe~g~LvGIIT~~DIlk~  208 (493)
T Consensus        79 a~~~m~~~~i~~lpVvd-~~~lvGiit~~Dilk~  111 (111)
T cd04800          79 ALLLMLERGIHHLPVVD-DGRLVGVISATDLLRL  111 (111)
T ss_pred             HHHHHHHCCCCEEEEEE-CCEEEEEEEHHHEECC
T ss_conf             99999853995899998-9999999985457363