HHsearch alignment for GI: 254780713 and conserved domain: cd00226
>cd00226 PRCH Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase. Subunit H is positioned mainly in the cytoplasm with one transmembrane alpha helix. Provides proton transfer pathway (water channels) connecting the terminal quinone electron acceptor of RC, to the aqueous phase. Found in photosynthetic bacteria: alpha, beta, and gamma proteobacteria.
Probab=92.73 E-value=0.38 Score=26.32 Aligned_cols=61 Identities=18% Similarity=0.309 Sum_probs=45.6
Q ss_pred HHHCCEEEEECCCEEEEEEEEE-ECCCCE--EEEEECC-CCCEEEEECHHHHCCEEECCCCEEEEECCCC
Q ss_conf 2401136752584311998866-579950--8999749-9828998750310010563397999952810
Q gi|254780713|r 102 DLEEMETFDRQGKYWGQVCGVY-NFGAGS--ILEIKNT-MEKTFLIPFTKFAVLEVNLQENKILIDPIAA 167 (190)
Q Consensus 102 dLiG~~V~d~~~~~iG~V~~v~-~~~a~d--il~V~~~-~~ke~lIP~v~~~I~~ID~~~k~I~v~~p~G 167 (190)
T Consensus 147 DPrG~~V~g~Dg~v~G~V~D~WVDr~E~lvRYlEvel~~~g~~~LlP~~~a~---i--~~~~V~v~si~~ 211 (246)
T cd00226 147 DPRGLPVVGADGEVAGKVTDLWVDRPEQLFRYLEVELAGGGRTVLLPMGFAK---V--KSDRVKVTAILS 211 (246)
T ss_pred CCCCCEEECCCCCEEEEEEEEEECCHHHEEEEEEEEECCCCCEEEEEEEEEE---E--CCCEEEEEEECH
T ss_conf 9898975726886456899988887321245899996589966997621068---8--488189987616