HHsearch alignment for GI: 254781020 and conserved domain: cd04741

>cd04741 DHOD_1A_like Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. 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.
Probab=99.81  E-value=7.5e-18  Score=123.47  Aligned_cols=249  Identities=14%  Similarity=0.068  Sum_probs=137.4

Q ss_pred             EEECCEEECCCEEEECHHHHHHHHCHHHHHHHHHHHHHHCCEEE-CCCCHH---------------------HHCCHHHH
Q ss_conf             99898962568685012663343000256999999998099066-052022---------------------11286688
Q gi|254781020|r   48 VEFLGKKLSFPLLISSMTGGNNKMIERINRNLAIAAEKTKVAMA-VGSQRV---------------------MFSDHNAI  105 (337)
Q Consensus        48 t~i~G~~l~~Pv~iapmsgg~~~~~~~~~~~lA~aa~~~g~~~~-~g~~~~---------------------~~~~~~~~  105 (337)
T Consensus         1 vt~~Gl~~~NPi~~AaG~~-~----~~--~e~~~~l~~~G~G~v~~kTit~~p~~GNp~PR~~r~~~~~iN~~G~~n~G~   73 (294)
T cd04741           1 VTPPGLTISPPLMNAAGPW-C----TT--LEDLLELAASSTGAVTTRSSTLAGRPGNPEPRYYAFPLGSINSLGLPNLGL   73 (294)
T ss_pred             CCCCCCCCCCCCEECCCCC-C----CC--HHHHHHHHHCCCEEEEECCCCCCCCCCCCCCEEEECCCHHHHHCCCCCCCH
T ss_conf             9068982899788745899-9----99--999999997696099928438767779999848855514666444788488


Q ss_pred             H-HHH-HHHH---CC--CHHHHHCCCCCCCCCCCCHHHHHHHH--HHHCCCEEEECCCCHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             8-999-9986---64--01232202752123679989999877--65089857625320356652068852430799999
Q gi|254781020|r  106 K-SFE-LRQY---AP--HTVLISNLGAVQLNYDFGVQKAHQAV--HVLGADGLFLHLNPLQEIIQPNGNTNFADLSSKIA  176 (337)
Q Consensus       106 ~-~~~-~~~~---~~--~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  176 (337)
T Consensus        74 ~~~~~~l~~~~~~~~~~~~pvi~si~g~---~~d~~~~~~~~~~~~~~~aD~ielNiScPn~~g~~~~~~~~~~~~~~~~  150 (294)
T cd04741          74 DYYLEYIRTISDGLPGSAKPFFISVTGS---AEDIAAMYKKIAAHQKQFPLAMELNLSCPNVPGKPPPAYDFDATLEYLT  150 (294)
T ss_pred             HHHHHHHHHHHHHCCCCCCCEEEECCCC---CHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHCCCHHHHHHHHH
T ss_conf             9999999998654655587089989998---3679999999986522556479997037898873100139999999999


Q ss_pred             HHHHHCCCCEEEEECCCCCCHHH--HHHHHH---CCCCEEEECCCCCC-CCCCHHHHCCCCC-C-CCHHHHHCCCCHHHH
Q ss_conf             99987399717850478668899--999997---69979994588886-5100123102344-3-232443106346889
Q gi|254781020|r  177 LLSSAMDVPLLLKEVGCGLSSMD--IELGLK---SGIRYFDIAGRGGT-SWSRIESHRDLES-D-IGIVFQDWGIPTPLS  248 (337)
Q Consensus       177 ~l~~~~~~pii~k~v~~~~~~~~--~~~a~~---aGad~i~v~~~gG~-~~~~~~~~r~~~~-~-~~~~~~~~gi~~~~a  248 (337)
T Consensus       151 ~v~~~~~~Pv~vKlsP~~~~~~~~~~~~~~~~~~~g~~~i~~~nt~~~~l~id~~~~~~~~~~~~~~GGlSG~~l~p~-a  229 (294)
T cd04741         151 AVKAAYSIPVGVKTPPYTDPAQFDTLAEALNAFACPISFITATNTLGNGLVLDPERETVVLKPKTGFGGLAGAYLHPL-A  229 (294)
T ss_pred             HHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH-H
T ss_conf             998415785599728988878999999998657887479998803677633357765643345566666678521589-9


Q ss_pred             HH---HHHHH-CCCCEEEECCCCCCHHHHHHHHHHCCCEEHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Q ss_conf             99---99852-28987997298888899999998388852334799998414668999999999999999
Q gi|254781020|r  249 LE---MARPY-CNEAQFIASGGLRNGVDILKSIILGASLGGLASPFLKPAMDSSDAVVAAIESLRKEFIV  314 (337)
Q Consensus       249 l~---~~~~~-~~~v~IiadGGIr~g~Dv~kAlalGAdaV~iGr~~l~~~~~G~~gv~~~l~~l~~el~~  314 (337)
T Consensus       230 l~~v~~~~~~~~~~i~Iig~GGI~s~~da~e~i~aGAs~VQv~Tal~~---~Gp~----~~~~I~~~L~e  292 (294)
T cd04741         230 LGNVRTFRRLLPSEIQIIGVGGVLDGRGAFRMRLAGASAVQVGTALGK---EGPK----VFARIEKELED  292 (294)
T ss_pred             HHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHCCCCHHHHHHHHHH---CCHH----HHHHHHHHHHH
T ss_conf             999999999749998799989979999999999839979999799997---0929----99999987996