HHsearch alignment for GI: 254780453 and conserved domain: cd02809

>cd02809 alpha_hydroxyacid_oxid_FMN Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO). In green plants, glycolate oxidase is one of the key enzymes in photorespiration where it oxidizes glycolate to glyoxylate. LMO catalyzes the oxidation of L-lactate to acetate and carbon dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate. It is an enzyme in the mandelate pathway that occurs in several strains of Pseudomonas which converts (R)-mandelate to benzoate.
Probab=95.85  E-value=0.026  Score=35.39  Aligned_cols=79  Identities=27%  Similarity=0.433  Sum_probs=50.7

Q ss_pred             HHHHHHHCCCCCCCCCCH-------------HHHHHHHHHCCCCE-EEEECCCCCCCCCCCCCEECCHHHHHHCCCCEEE
Q ss_conf             454211024431113410-------------34455442024403-5510113578657984003698999965998999
Q gi|254780453|r  147 RAVQARDIGMGGIVCSPQ-------------EVRMVREIVGHNMV-IVTPGIRMLGSATDGQKRFATPETALKYGASHIV  212 (238)
Q Consensus       147 ~a~~a~~~g~~GvV~s~~-------------ei~~ir~~~~~~~~-~itPGI~~~~~~~~dq~r~~tp~~Ai~~GaD~iV  212 (238)
T Consensus       185 DA~~a~~~G~dgI~VSNHGGRqlD~~p~~i~~L~~i~~~v~~~~~v~~DgGvR~-G~D---------v~KAlaLGA~~V~  254 (299)
T cd02809         185 DALRAVDAGADGIVVSNHGGRQLDGAPATIDALPEIVAAVGGRIEVLLDGGIRR-GTD---------VLKALALGADAVL  254 (299)
T ss_pred             HHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEECCCCCC-HHH---------HHHHHHCCCCEEE
T ss_conf             999999859988997288733368887789999999998546728997188475-368---------9999976998898


Q ss_pred             ECCHHCCC--CC----HHHHHHHHHHHHH
Q ss_conf             98533088--88----8999999999866
Q gi|254780453|r  213 VSRPIVRA--AD----PVSAAQEFQRAIS  235 (238)
Q Consensus       213 VGR~I~~a--~d----P~~aa~~i~~~i~  235 (238)
T Consensus       255 iGRp~l~~l~~~G~~Gv~~~~~~l~~El~  283 (299)
T cd02809         255 IGRPFLYGLAAGGEAGVAHVLEILRDELE  283 (299)
T ss_pred             ECHHHHHHHHHCCHHHHHHHHHHHHHHHH
T ss_conf             77899999885449999999999999999