HHsearch alignment for GI: 254780808 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=98.84 E-value=3.5e-09 Score=84.72 Aligned_cols=389 Identities=22% Similarity=0.288 Sum_probs=205.3
Q ss_pred CEEEECCCHHHHHHHHHHHHCC---CCEEEEE--------------------C-CH-----------HH-----------
Q ss_conf 7889889426899999998589---9899998--------------------0-76-----------26-----------
Q gi|254780808|r 7 DVIVIGGGHAGCEAAAVAAKLG---ASTALIT--------------------H-KT-----------ST----------- 40 (626)
Q Consensus 7 dViVIGaG~AG~EAA~~~Ar~G---~~v~L~~--------------------~-~~-----------~~----------- 40 (626)
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 CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHCCCC---------------------------CCCC
Q ss_conf 012466700221122489999986303999999--88631488730787---------------------------8555
Q gi|254780808|r 41 IGSMSCNPAIGGLGKGHLVREIDALDGLMGRVA--DAAGIQFRVLNVKK---------------------------GPAV 91 (626)
Q Consensus 41 ~ael~Cnps~gg~akg~L~~Ei~aLgg~m~~~a--D~~~i~~r~ln~sk---------------------------GpAv 91 (626)
T Consensus 81 Ave~~~~~AP------~~v~eLe~wG~PfSR~~kGDRmai----inaqkttiteeDfRDG~IaQR~FGG~~~~~Gg~~a~ 150 (636)
T TIGR01812 81 AVEYMCKEAP------KAVLELERWGVPFSRLPKGDRMAI----INAQKTTITEEDFRDGRIAQRPFGGASFDYGGAAAR 150 (636)
T ss_pred HHHHHHHHCC------HHHHHHHHCCCCCCCCCCCCEEEE----EECCCCEECCCCCCCCCEEECCCCCCCCCCCCCHHH
T ss_conf 9999985151------789999737898567867764777----624542002011558835343788888655662221
Q ss_pred CCHHHHHHHHHHHH--HHHHHHHCCCCCEEEHH-HHCCCCCC-CC--CEEEEE-----ECCCCCCCCCCCCCCCCCCCHH
Q ss_conf 34678784999999--99999970899689800-10112025-88--113222-----0358633445433346643101
Q gi|254780808|r 92 RGPRTQADRELYRL--AMQREILSQENLDVIQG-EVAGFNTE-KN--IISSIV-----MQDNSMIRCSTVVLTTGTFLRG 160 (626)
Q Consensus 92 ~alraqvDR~~fs~--~vt~~l~~~pni~i~~~-eV~~l~~~-~~--~~~~v~-----~~~g~~~~~~~viiatGtfl~g 160 (626)
T Consensus 151 RTc-yAADkTGh~~LHTLye~~l~~~~V~ff~E~fa~~L~~~~~~GP~~~Gvva~~l~~G~~~~~~AKaVv~ATGG~--- 226 (636)
T TIGR01812 151 RTC-YAADKTGHALLHTLYEQCLKLDGVEFFNEYFALDLILDQDGGPRVRGVVAYDLKTGEIVFFRAKAVVLATGGY--- 226 (636)
T ss_pred HHH-HHHCCCCHHHHHHHHHHHHCCCCCEEEHHHHHHHHHHHCCCCCEEEEEEEEEECCCEEEEEEECCEEEEECCC---
T ss_conf 342-0012113147898999985379942753888877887458986799999998058808999607489830651---
Q ss_pred HHHHHHCCCCCCCCCC-CCCCCCCCHHHHHHHHCCCCCCCCCCHHHHCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 3444320233222475-111331000010112005444454410110000134432114787668777435657800000
Q gi|254780808|r 161 VIHIGKLKIPAGRMGD-SPSNSLFNSFMKFDFDTGRLKTGTPARLDGKTIIWDKTEKQFADERLIPFSFMTDKITNRQIE 239 (626)
Q Consensus 161 ~~~~g~~~~~~gr~~~-~~s~~ls~~l~~~~~~~~r~ktgtppri~~~sidf~~~e~q~~d~~~~~~s~~~~~~~~~q~~ 239 (626)
T Consensus 227 -----------GR~Y~~~tTNa~~~TG------------------DG~A~AlraG~PqL~D-----MEFvQFHPTGL--- 269 (636)
T TIGR01812 227 -----------GRVYKFTTTNAHINTG------------------DGLAMALRAGVPQLKD-----MEFVQFHPTGL--- 269 (636)
T ss_pred -----------HHHHCCCCCCCEEECC------------------CHHHHHHHHCCCCCCC-----CCCEECCCCCC---
T ss_conf -----------0210304454422354------------------0688888734643168-----44050367455---
Q ss_pred CCCCCCCCCHHHHHHHCCCC---CCCCCCCCCCCCCC--CCCCCCCCCC-------------------CCCCCCC-CCCE
Q ss_conf 00012320014777640245---75414432356422--2553212335-------------------6764334-5201
Q gi|254780808|r 240 CGITRTNLETHRIIMENIKH---SAIYSGDIKSYGPR--YCPSIEDKIV-------------------RFGERNG-HQIF 294 (626)
Q Consensus 240 ~~~~~t~~~~~~~~~~~~~~---~~~~~g~~~~~gpr--ycPsie~k~~-------------------~~~~~p~-h~Vq 294 (626)
T Consensus 270 --------~~sGiL~tEgcRGEGGyL~N~~GeRFM~ryGYAPetP~k~eLApRDvVSRa~~~EireGRGv~~~~~k~~v~ 341 (636)
T TIGR01812 270 --------APSGILITEGCRGEGGYLINKEGERFMERYGYAPETPEKMELAPRDVVSRAMVTEIREGRGVGSGPGKDYVY 341 (636)
T ss_pred --------CCCCEEEEEEEECCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEE
T ss_conf --------667717740133276168678753103446888788750004787699999999998448889887887788
Q ss_pred E--EECCCCCCEEEECCCCCCCCHHHHHH--------HHHH-HHHHHHCCEEEECCHHHHCCC-CHHH-----HHH-HHH
Q ss_conf 3--01578776454347766689889999--------9987-543400100110001211023-5456-----567-765
Q gi|254780808|r 295 L--EPEGLNTDVVYPNGISTALPEEIQHQ--------FIRT-IPGLEKVNIIRPGYAIEYDYI-NPKE-----LFP-TLE 356 (626)
Q Consensus 295 L--rpE~~~~~~~n~vGFqTsL~~~~Q~r--------v~r~-IPGLEnAef~R~Gy~ieyd~~-~P~~-----L~~-tLe 356 (626)
T Consensus 342 LDLrHLGee~-------i~~RLP~i~E~A~~f~GVDPv~~pWiP-------VrPt--~HY~MGGI~T~~~G~~~~~D~~~ 405 (636)
T TIGR01812 342 LDLRHLGEEK-------IEERLPQIRELAKTFAGVDPVKEPWIP-------VRPT--AHYSMGGIDTNYRGQVIGEDAKN 405 (636)
T ss_pred EEHHHCCHHH-------HHHCCHHHHHHHHHHCCCCCCCCCCCC-------CCCC--CCCCCCCEEECCCCEEECCCCCC
T ss_conf 7640134788-------852075689999970488830057626-------4564--44118278445842487016788
Q ss_pred HH-CCCEEEEEEEEECCC----------HHHHHHHHHHHHHHHHHHHCC-CCCC--CC---CCCCCCHHHHHHHHHHCCC
Q ss_conf 40-334156621330433----------466666677899999874203-3456--54---6532107999999886078
Q gi|254780808|r 357 TK-KISGLFLAGQINGTT----------GYEEAAAQGLVAGINSARKSN-KLDC--IC---FSRTDSYIGVMIDDLTSKG 419 (626)
Q Consensus 357 ~k-~~~~LffAGQI~Gte----------GYeEAAAqGl~AGiNa~~~~~-~~~p--~~---l~R~eaYiGVlIDDLitkg 419 (626)
T Consensus 406 ~~~iv~GLfAaGE~ACVSVHGANRLGsNSLle~vVFGr~aG~~~ae~~~~~~~~neL~~~~~~~~~~~~~~~~~~~~~~~ 485 (636)
T TIGR01812 406 NDSIVKGLFAAGECACVSVHGANRLGSNSLLELVVFGRIAGEAAAEYLAKTGVDNELAADLEEEEVKKEEALIDLLKEEG 485 (636)
T ss_pred CCCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf 88621010220102220341213060567999999979999999999860688631133454458999999999730367
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-HCCCCC
Q ss_conf 774024420001221211578713668887877378838999999999999999999876-336883
Q gi|254780808|r 420 VLEPYRMFTSRAEYRISLRPDNADNRLTPIGMKLGCIGERRQKRFAKYIQEYNFLRSLLK-SLVLTS 485 (626)
Q Consensus 420 ~~EPYRMfTSRAEyRL~LR~DNAd~RLt~~g~~~GLv~~~r~~~~~~k~~~~~~~~~~l~-~~~~~p 485 (626)
T Consensus 486 ~~-~~~~a~ir~~l~~~M~~~~gvFR--------------~~~~l~~a~~~i~eL~eR~~~~v~i~D 537 (636)
T TIGR01812 486 NG-GERVAQIREELQETMEANVGVFR--------------TEELLKKAVDEIEELRERRYKNVKIND 537 (636)
T ss_pred CC-CCCHHHHHHHHHHHHHCCCEEEE--------------CCHHHHHHHHHHHHHHHCCCCCEEEEE
T ss_conf 88-73579999999888665857987--------------732278899999998610016456740