HHsearch alignment for GI: 254780276 and conserved domain: cd04739

>cd04739 DHOD_like Dihydroorotate dehydrogenase (DHOD) like proteins. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. This subgroup has the conserved FMN binding site, but lacks some catalytic residues and may therefore be inactive.
Probab=95.39  E-value=0.067  Score=34.44  Aligned_cols=86  Identities=23%  Similarity=0.342  Sum_probs=59.9

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCE---ECCCCCC----CCHHHHHHHHHHH
Q ss_conf             08999999986543110123443003674102789999753432102443200---1234334----3178899999998
Q gi|254780276|r   50 TLSHEEHCRIIELCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALLV---VIPYYNK----PNRRGLLAHFGEI  122 (292)
Q Consensus        50 ~Ls~~Er~~~~~~~~~~~~~r~pii~gv~~~~~~~~i~~a~~a~~~Gad~i~v---~~P~~~~----~~~~~i~~~~~~i  122 (292)
T Consensus        81 n~g~e~~l~~i~~~~~~~--~~pvI~Si~g~s~ee~~~~a~~~~~~gad~lElNls~~~~~~~~~~~~~~~~~~~iv~~V  158 (325)
T cd04739          81 NLGPEEYLELIRRAKRAV--SIPVIASLNGVSAGGWVDYARQIEEAGADALELNIYALPTDPDISGAEVEQRYLDILRAV  158 (325)
T ss_pred             CCCHHHHHHHHHHHHHHC--CCCEEEEECCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             758999999999987535--987598716899899999999997649987999656678885544210688999999999


Q ss_pred             HHHHCCCCEEEECHH
Q ss_conf             753023301210011
Q gi|254780276|r  123 ATTVSSPIYIYNNPS  137 (292)
Q Consensus       123 ~~~~~~pi~iYn~P~  137 (292)
T Consensus       159 k~~~~~Pv~vKLsP~  173 (325)
T cd04739         159 KSAVTIPVAVKLSPF  173 (325)
T ss_pred             HHCCCCCEEEECCCC
T ss_conf             860788669953998