HHsearch alignment for GI: 254780283 and conserved domain: TIGR01812
>TIGR01812 sdhA_frdA_Gneg succinate dehydrogenase or fumarate reductase, flavoprotein subunit; InterPro: IPR014006 Succinate:quinone oxidoreductase (1.3.5.1 from EC) refers collectively to succinate:quinone reductase (SQR, or Complex II) and quinol:fumarate reductase (QFR) . SQR is found in aerobic organisms, and catalyses the oxidation of succinate to fumarate in the citric acid cycle and donates the electrons to quinone in the membrane. QFR can be found in anaerobic cells respiring with fumarate as terminal electron acceptor. SQR and QFR are very similar in composition and structure, despite catalysing opposite reactions in vivo. They are thought to have evolved from a common ancestor, and in Escherichia coli they are capable of functionally replacing each other . Succinate:quinone oxidoreductases consist of a peripheral domain, exposed to the cytoplasm in bacteria and to the matrix in mitochondria, and a membrane-integral anchor domain that spans the membrane (Fig. 1). The peripheral part, which contains the dicarboxylate binding site, is composed of a flavoprotein subunit, with one covalently bound FAD, and an iron-sulphur protein subunit containing three iron-sulphur clusters. The membrane-integral domain functions to anchor the peripheral domain to the membrane and is required for quinone reduction and oxidation. The anchor domain shows the largest variability in composition and primary sequence, being composed either of one large subunit, or two smaller subunits, which may, or may not, contain protoheme groups. This entry represents the flavoprotein subunit found in both the SQR and QFR enzymes. This subunit contains an N-terminal domain which binds the FAD cofactor, a central catalytic domain with an unsual fold, and a C-terminal domain whose role is unclear , , . The dicarboxylate binding site is located between the FAD and catalytic domains..
Probab=99.14 E-value=7.2e-10 Score=76.20 Aligned_cols=300 Identities=20% Similarity=0.255 Sum_probs=142.9
Q ss_pred EEEEECCCHHHHHHHHHHHHCC---CCEEEEECCC---------CCCE---EE-E-------------------------
Q ss_conf 1999989777999999999869---9599996788---------7756---87-5-------------------------
Q gi|254780283|r 7 KILIIGSGPAGYTAAIYAARAM---LKPVIIAGSD---------LGGQ---LM-I------------------------- 45 (321)
Q Consensus 7 dVvIIG~GpAGl~aA~~l~r~g---~~v~iie~~~---------~GG~---l~-~------------------------- 45 (321)
T Consensus 1 D~vIVGaGgAGlRAA~e~a~~gPp~~~~AvisKvyP~RSHtvAAQGG~~Aal~~n~d~~D~~e~H~yDTVKGsDyLaDQD 80 (636)
T TIGR01812 1 DVVIVGAGGAGLRAAVEAAKAGPPNLNVAVISKVYPTRSHTVAAQGGIAAALANNVDPDDSWEWHAYDTVKGSDYLADQD 80 (636)
T ss_pred CEEEECCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCHHHH
T ss_conf 97888186689999999973577961079995569885201535678999957786432072123041101442132589
Q ss_pred ----------------------ECCCC---------------------C-------CCC--CC------------CCCCH
Q ss_conf ----------------------01007---------------------8-------774--77------------77897
Q gi|254780283|r 46 ----------------------TESIE---------------------N-------YPG--FA------------TSIRG 61 (321)
Q Consensus 46 ----------------------~~~i~---------------------n-------~~g--~~------------~~~~~ 61 (321)
T Consensus 81 Ave~~~~~AP~~v~eLe~wG~PfSR~~kGDRmaiinaqkttiteeDfRDG~IaQR~FGG~~~~~Gg~~a~RTcyAADkTG 160 (636)
T TIGR01812 81 AVEYMCKEAPKAVLELERWGVPFSRLPKGDRMAIINAQKTTITEEDFRDGRIAQRPFGGASFDYGGAAARRTCYAADKTG 160 (636)
T ss_pred HHHHHHHHCCHHHHHHHHCCCCCCCCCCCCEEEEEECCCCEECCCCCCCCCEEECCCCCCCCCCCCCHHHHHHHHHCCCC
T ss_conf 99999851517899997378985678677647776245420020115588353437888886556622213420012113
Q ss_pred HHHHHHHHHHHHHC-CCCCCCEE-EEECCCC-CC--CC----CCCCCCCC--CCCCCEECCCCCCCCEEEE-E-CCCCCC
Q ss_conf 89998664323200-23222113-3201122-22--22----22222222--2210000147766420246-5-277433
Q gi|254780283|r 62 DWLMEQMRQQAENF-GTKIIQDL-VVSVDLD-RH--PF----LVETQSGD--LWHADAVVIATGSEVKWLR-L-ESEKKF 128 (321)
Q Consensus 62 ~~l~~~~~~~~~~~-~v~~~~~~-V~~i~~~-~~--~~----~v~~~~g~--~~~a~~lIiAtG~~~~~~~-i-pG~~~~ 128 (321)
T Consensus 161 h~~LHTLye~~l~~~~V~ff~E~fa~~L~~~~~~GP~~~Gvva~~l~~G~~~~~~AKaVv~ATGG~GR~Y~~~tTNa~~~ 240 (636)
T TIGR01812 161 HALLHTLYEQCLKLDGVEFFNEYFALDLILDQDGGPRVRGVVAYDLKTGEIVFFRAKAVVLATGGYGRVYKFTTTNAHIN 240 (636)
T ss_pred HHHHHHHHHHHHCCCCCEEEHHHHHHHHHHHCCCCCEEEEEEEEEECCCEEEEEEECCEEEEECCCHHHHCCCCCCCEEE
T ss_conf 14789899998537994275388887788745898679999999805880899960748983065102103044544223
Q ss_pred CEEECC-----CCC-CCCCCC--CCCCCEEEEECCCCCCCCEEEEECCCCCCCCCC-CCCCCCCC-CCC---CCCCCCCC
Q ss_conf 202101-----211-111111--122100001025565431012101333222344-34332211-112---11223554
Q gi|254780283|r 129 QGFGVS-----ACA-TCDGFF--YKNKDVIVVGGGNTAAEEALHLAKIARRVTIVH-RRSSLRSE-KIL---QEKLFLQS 195 (321)
Q Consensus 129 ~~~~v~-----~~~-~~d~~~--~~~k~v~ViGgG~~g~e~A~~L~~~~~~Vtli~-r~~~l~~~-~~~---~~~~~~~~ 195 (321)
T Consensus 241 TGDG~A~AlraG~PqL~DMEFvQFH--PTGL~~sGiL~tEgc----R-GEGGyL~N~~GeRFM~ryGYAPetP~k~eL-A 312 (636)
T TIGR01812 241 TGDGLAMALRAGVPQLKDMEFVQFH--PTGLAPSGILITEGC----R-GEGGYLINKEGERFMERYGYAPETPEKMEL-A 312 (636)
T ss_pred CCCHHHHHHHHCCCCCCCCCCEECC--CCCCCCCCEEEEEEE----E-CCCCEEECCCCCCCCCCCCCCCCCCCCCCC-C
T ss_conf 5406888887346431684405036--745566771774013----3-276168678753103446888788750004-7
Q ss_pred CCCCCCCCCEEECCCCCCCCC-CCCCCCCEEECCCCCCCC--------------CCCCCCCCCCC-CCCCCCHHHHHCCC
Q ss_conf 433222231121148643334-444433314203210000--------------01122221112-32235656774256
Q gi|254780283|r 196 NIDFLFDTEVVDVIGSIPEPP-LFPSVSGVRLHNKKEGNF--------------FERNVDGIFIA-IGYKPNTKIFRHQL 259 (321)
Q Consensus 196 ~i~~~~~~~v~~i~g~~~~~~-~~~~~~~v~~~~~~~g~~--------------~~i~~D~vi~a-~G~~pn~~~~~~~~ 259 (321)
T Consensus 313 pRDvVSRa~~~EireGRGv~~~~~k~~v~LDLrH--LGee~i~~RLP~i~E~A~~f~GVDPv~~pWiPVrPt~HY~MGGI 390 (636)
T TIGR01812 313 PRDVVSRAMVTEIREGRGVGSGPGKDYVYLDLRH--LGEEKIEERLPQIRELAKTFAGVDPVKEPWIPVRPTAHYSMGGI 390 (636)
T ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCCEEEEEHHH--CCHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCE
T ss_conf 8769999999999844888988788778876401--34788852075689999970488830057626456444118278
Q ss_pred CEECCCCEEEECCCCCCC-CCCEEEECCCCCC--------CHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 180699799008885547-8982897012688--------44567899997999999999999742
Q gi|254780283|r 260 KMTNTNYIWTMPDSTATS-IPGIFAAGDVADE--------RYRQAITAAAMGCMAALEVEHYLSIH 316 (321)
Q Consensus 260 ~~~~~g~i~~~~~~~~Ts-~p~Iya~GDv~~~--------~~~~~~~A~~~G~~Aa~~i~~yl~~~ 316 (321)
T Consensus 391 ~T~~~G~~~~~D~~~~~~iv~GLfAaGE~ACVSVHGANRLGsNSLle~vVFGr~aG~~~ae~~~~~ 456 (636)
T TIGR01812 391 DTNYRGQVIGEDAKNNDSIVKGLFAAGECACVSVHGANRLGSNSLLELVVFGRIAGEAAAEYLAKT 456 (636)
T ss_pred EECCCCEEECCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 445842487016788886210102201022203412130605679999999799999999998606