HHsearch alignment for GI: 254781020 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=99.98  E-value=2.5e-30  Score=196.95  Aligned_cols=265  Identities=19%  Similarity=0.114  Sum_probs=174.8

Q ss_pred             CCEEEECCEEECCCEEEECHHHHHHHHCHHHHHHHHHHHHHHCCEEE-CCCCH---------------------------
Q ss_conf             46299898962568685012663343000256999999998099066-05202---------------------------
Q gi|254781020|r   45 DPSVEFLGKKLSFPLLISSMTGGNNKMIERINRNLAIAAEKTKVAMA-VGSQR---------------------------   96 (337)
Q Consensus        45 dlst~i~G~~l~~Pv~iapmsgg~~~~~~~~~~~lA~aa~~~g~~~~-~g~~~---------------------------   96 (337)
T Consensus         1 DLst~~~Gl~l~NPi~~ASg--~~~~~-----~e~~~~~~~~G~Gavv~KSi~~e~i~~~~~~~~~~~~~~~~~~~~~~~   73 (325)
T cd04739           1 DLSTTYLGLSLKNPLVASAS--PLSRN-----LDNIRRLEDAGAGAIVLPSLFEEQIEREAQELDRFLTYGSSFAEALSY   73 (325)
T ss_pred             CCCEEECCEECCCCCEECCC--CCCCC-----HHHHHHHHHCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCH
T ss_conf             98579899967998885652--56899-----999999998596799979567423456778889888899887112140


Q ss_pred             --HH-HCCHHHHHHHH-HHHH--CCCHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCEEEECCCCHHHHHHHCCCCCHHH
Q ss_conf             --21-12866888999-9986--640123220275212367998999987765089857625320356652068852430
Q gi|254781020|r   97 --VM-FSDHNAIKSFE-LRQY--APHTVLISNLGAVQLNYDFGVQKAHQAVHVLGADGLFLHLNPLQEIIQPNGNTNFAD  170 (337)
Q Consensus        97 --~~-~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (337)
T Consensus        74 ~n~~g~~n~g~e~~l~~i~~~~~~~~~pvI~Si~g~---s~ee~~~~a~~~~~~gad~lElNls~~~~~~~~~~~~~~~~  150 (325)
T cd04739          74 FPEYGRYNLGPEEYLELIRRAKRAVSIPVIASLNGV---SAGGWVDYARQIEEAGADALELNIYALPTDPDISGAEVEQR  150 (325)
T ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCC---CHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCHHHHH
T ss_conf             332145575899999999998753598759871689---98999999999976499879996566788855442106889


Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCCCCH-HHHHHHHHCCCCEEEECCCCCCCCCCHHHHCCCCCCCCHHHHHCCCCHHHHH
Q ss_conf             799999999873997178504786688-9999999769979994588886510012310234432324431063468899
Q gi|254781020|r  171 LSSKIALLSSAMDVPLLLKEVGCGLSS-MDIELGLKSGIRYFDIAGRGGTSWSRIESHRDLESDIGIVFQDWGIPTPLSL  249 (337)
Q Consensus       171 ~~~~i~~l~~~~~~pii~k~v~~~~~~-~~~~~a~~aGad~i~v~~~gG~~~~~~~~~r~~~~~~~~~~~~~gi~~~~al  249 (337)
T Consensus       151 ~~~iv~~Vk~~~~~Pv~vKLsP~~~di~~ia~aa~~~GAdgi~liNT~~~~~id~~~~~~~~~~---~lSg~~~~~~-al  226 (325)
T cd04739         151 YLDILRAVKSAVTIPVAVKLSPFFSALAHMAKQLDAAGADGLVLFNRFYQPDIDLETLEVVPNL---LLSSPAEIRL-PL  226 (325)
T ss_pred             HHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCEEECCC---CCCCCCCCHH-HH
T ss_conf             9999999986078866995399830099999999975998899735766564216764153687---7457530068-89


Q ss_pred             HHHHHH--CCCCEEEECCCCCCHHHHHHHHHHCCCEEHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Q ss_conf             999852--289879972988888999999983888523347999984146689999999999999999998089857896
Q gi|254781020|r  250 EMARPY--CNEAQFIASGGLRNGVDILKSIILGASLGGLASPFLKPAMDSSDAVVAAIESLRKEFIVSMFLLGTKRVQEL  327 (337)
Q Consensus       250 ~~~~~~--~~~v~IiadGGIr~g~Dv~kAlalGAdaV~iGr~~l~~~~~G~~gv~~~l~~l~~el~~~m~~~G~~~i~el  327 (337)
T Consensus       227 r~v~~~~~~~~ipIiG~GGI~s~~Da~e~ilAGAsaVQv~TA~~~---~G~----~i~~~i~~eL~~~m~~~G~~si~e~  299 (325)
T cd04739         227 RWIAILSGRVKASLAASGGVHDAEDVVKYLLAGADVVMTTSALLR---HGP----DYIGTLLAGLEAWMEEHGYESVQQL  299 (325)
T ss_pred             HHHHHHHCCCCCCEEEECCCCCHHHHHHHHHCCCCHHHEEHHHHH---HCC----HHHHHHHHHHHHHHHHCCCCCHHHH
T ss_conf             999999646898988888959899999999809887614323464---183----7999999999999998399979996


Q ss_pred             HCC
Q ss_conf             149
Q gi|254781020|r  328 YLN  330 (337)
Q Consensus       328 ~~~  330 (337)
T Consensus       300 ~Gk  302 (325)
T cd04739         300 RGS  302 (325)
T ss_pred             CCC
T ss_conf             273