HHsearch alignment for GI: 254780347 and conserved domain: TIGR00187

>TIGR00187 ribE riboflavin synthase, alpha subunit; InterPro: IPR001783 The following proteins have been shown , to be structurally and evolutionary related: Riboflavin synthase alpha chain (2.5.1.9 from EC) (RS-alpha) (gene ribC in Escherichia coli, ribB in Bacillus subtilis and Photobacterium leiognathi, RIB5 in yeast. This enzyme synthesises riboflavin from two moles of 6,7- dimethyl-8-(1'-D-ribityl)lumazine (Lum), a pteridine-derivative. Photobacterium phosphoreum lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase. In the presence of LumP, light emission is shifted to higher energy values (shorter wavelength). LumP binds non-covalently to 6,7-dimethyl-8-(1'-D-ribityl)lumazine. Vibrio fischeri yellow fluorescent protein (YFP) (gene luxY). Like LumP, YFP modulates light emission but towards a longer wavelength. YFP binds non-covalently to FMN. These proteins seem to have evolved from the duplication of a domain of about 100 residues. In its C-terminal section, this domain contains a conserved motif [KR]-V-N-[LI]-E which has been proposed to be the binding site for lumazine (Lum) and some of its derivatives. RS-alpha which binds two molecules of Lum has two perfect copies of this motif, while LumP which binds one molecule of Lum, has a Glu instead of Lys/Arg in the first position of the second copy of the motif. Similarly, YFP, which binds to one molecule of FMN, also seems to have a potentially dysfunctional binding site by substitution of Gly for Glu in the last position of the first copy of the motif. .
Probab=99.81  E-value=1.4e-20  Score=140.97  Aligned_cols=88  Identities=27%  Similarity=0.335  Sum_probs=83.4

Q ss_pred             EEEECCCCHHHHHHHCCCCCE------EEEEEECCCCCCCEECCCCEEEEEEEEEEEEEECCCEEEEEEEHHHHCCCCHH
Q ss_conf             245401001101110023313------79875134211210023571998234578774168549999844433013300
Q gi|254780347|r  102 LVSGHIDGTVEILFLDFIGDS------MYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNFFDVLLIRHTIEETTWK  175 (204)
Q Consensus       102 ~v~GhVd~~~~i~~i~~~~~~------~~~~i~~~~~~~~~l~~KgsI~idGvSLTV~~~~~~~f~v~lIp~Tl~~T~l~  175 (204)
T Consensus         1 MFTGIi~~~g~~~s~~~~~~~esGGqG~~~~~~~~~~~L~D~~lGdSIA~NGvCLTV~e~~~~~f~vd~s~ET~~~t~L~   80 (225)
T TIGR00187         1 MFTGIIQGTGKVKSIKEKRLFESGGQGISLTINLAQKILEDLHLGDSIAVNGVCLTVTEINKDHFSVDLSPETLKRTNLG   80 (225)
T ss_pred             CCCEEECCCEEEEECCCCCCCCCCCCCEEECCCCCHHHHCCCCCCCEEEECCEEEEEEEECCCEEEEEECHHHHHHHHHH
T ss_conf             96302023023320013322012785047634872345402520454123674332221128868998325673354233


Q ss_pred             HCCCC-CEEEEEHHH
Q ss_conf             24899-674697135
Q gi|254780347|r  176 MHKVG-DLINIEVDS  189 (204)
Q Consensus       176 ~~k~G-d~VNiE~D~  189 (204)
T Consensus        81 ~~k~gr~~VNiErA~   95 (225)
T TIGR00187        81 DLKVGRTKVNIERAL   95 (225)
T ss_pred             HHHHCCCEECEEHHH
T ss_conf             355236720110674