HHsearch alignment for GI: 254780241 and conserved domain: TIGR00967
>TIGR00967 3a0501s007 preprotein translocase, SecY subunit; InterPro: IPR002208 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains . Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices. The eubacterial secY protein interacts with the signal sequences of secretory proteins as well as with two other components of the protein translocation system: secA and secE. SecY is an integral plasma membrane protein of 419 to 492 amino acid residues that apparently contains 10 transmembrane (TM), 6 cytoplasmic and 5 periplasmic regions. Cytoplasmic regions 2 and 3, and TM domains 1, 2, 4, 5, 7 and 10 are well conserved: the conserved cytoplasmic regions are believed to interact with cytoplasmic secretion factors, while the TM domains may participate in protein export . Homologs of secY are found in archaebacteria . SecY is also encoded in the chloroplast genome of some algae where it could be involved in a prokaryotic-like protein export system across the two membranes of the chloroplast endoplasmic reticulum (CER) which is present in chromophyte and cryptophyte algae.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0009306 protein secretion, 0016020 membrane.
Probab=100.00 E-value=0 Score=873.14 Aligned_cols=407 Identities=47% Similarity=0.844 Sum_probs=367.5
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCC-CHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 999999999999998506798987398899998730355-3788998642770222046873547899999999999852
Q gi|254780241|r 24 KSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSA-GIFGLFNMFSGGAVERMAVFSLGIMPYISASIIVQLIAAT 102 (444)
Q Consensus 24 ~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~-~~~~~l~~~sGga~~~~sif~LGI~PyItASIi~QLL~~~ 102 (444)
T Consensus 1 r~r~l~T~~~L~l~R~G~~IP~PG~~~~~~~~~~~~~~~~g~~~~ln~f~Gg~~~~~sifALGI~PYItASIi~QLL~~~ 80 (489)
T TIGR00967 1 RERLLFTLGLLVLFRLGTFIPVPGIDAQAFQNSIQQNPSRGIFGLLNTFSGGALGQISIFALGISPYITASIILQLLTGD 80 (489)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 93799999999999996025777643777766530365751889999850231444354553104378899999999987
Q ss_pred HHHHHHH-HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCC-------CCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 1547864-1146368999998869999999999999999-72355-------6762258750479999999999999999
Q gi|254780241|r 103 VPSLENL-KKEGEQGRKVINQYTRYATVLLGILQAYGIA-VGLKN-------GQGIVSDSDYFFVFSTIITLLGGTMFLV 173 (444)
Q Consensus 103 ~P~l~~l-~kege~gr~ki~~~tr~ltl~~a~iQs~~~~-~~l~~-------~~~~~~~~~~~~~~~~il~L~aGs~il~ 173 (444)
T Consensus 81 v~~~~~~~~~ege~GR~K~~~~Try~tl~~A~~Qs~~~~~~~~~~gLf~~~~~~~~~~~~~~~~~~~~~~~Lt~Gs~~~m 160 (489)
T TIGR00967 81 VPPLLTLQKKEGEIGRRKINQLTRYLTLILALIQSLGIVATGISPGLFNNMSSGGYVINPGLFFYLLIVIALTTGSMIVM 160 (489)
T ss_pred HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 88887405465856699997657999999999999999999863431256556764333348999999999999899999
Q ss_pred HHHHHHHH-CCCCCCCHHHHCCCHHHHHHHHHHHHHHH-----------------------HCCCCC------CHHHHHH
Q ss_conf 99998740-88987520362101465767887433332-----------------------001232------1589999
Q gi|254780241|r 174 WLGEQITM-RGIGNGVSLIIFSGIVAGLPSSLVSVLEL-----------------------GRVGSI------STPLMLL 223 (444)
Q Consensus 174 wl~e~It~-~GIGnG~SLiI~~gIi~~lp~~l~~~~~~-----------------------~~~~~~------~~~~~l~ 223 (444)
T Consensus 161 wl~E~It~G~GiGnGiSl~If~gI~~~iP~~l~~~~~~n~g~G~~y~w~~~~~f~lla~~~~~~~~~~~~~~~~~l~~~~ 240 (489)
T TIGR00967 161 WLGEQITEGKGIGNGISLLIFAGIVATIPSALLQTYEVNNGEGIEYEWALIALFHLLAGIQSKVGDLANAFYRAWLSFLL 240 (489)
T ss_pred HHHHHHHCCEEEECCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 99867635812204048999999999989987642015665750200087875123320000114300245788999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCC--CCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCH
Q ss_conf 999999999999988653323210110121166423--564311444200002379999999998688888750777724
Q gi|254780241|r 224 IFSSTVAVIALVIFFERAQRRLLIQYPKRQVGNRMF--QDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSP 301 (444)
Q Consensus 224 ~~~~~l~vi~~iV~v~~~~rrIPi~y~~~~~~~~~~--~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~ 301 (444)
T Consensus 241 ~~~~~~~~~~~vvf~~~~~R~iPi~~ak~~~~~~~~~~~~~~~~lPlKln~aGViPvIFASa~~~~p~~i~~~~~~~~~~ 320 (489)
T TIGR00967 241 VLLATVAVIAVVVFVQQARRKIPIQSAKRQGGRRSYERGSQSTYLPLKLNQAGVIPVIFASALLSLPATIAQFLNSNQGS 320 (489)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEEEECCEECCCCCCCCCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 99999999998875301377875543662034432000345300436873666304899999999999999975202565
Q ss_pred --------------------HHHHHHHHH---CC------CCCCHHHHHH----HHHHHHHHHHHHH-HCCCHHHHHHHH
Q ss_conf --------------------799988753---06------6763169999----9999999999986-237989999999
Q gi|254780241|r 302 --------------------TWIVGLVDS---LG------HGRSFYMVLY----SVFIVFFAFFYTA-IVFNPKEAADNL 347 (444)
Q Consensus 302 --------------------~~~~~~~~~---~~------~~~~~y~i~y----~ilii~Fs~f~~~-i~~~P~~iAe~L 347 (444)
T Consensus 321 nl~~lLG~y~~~G~~~~~a~gg~~~~~~~~~~~~WmWW~~~~~~~~~~~Y~~~m~~lI~~F~~fY~~t~~~NP~~~A~Nl 400 (489)
T TIGR00967 321 NLIALLGTYEISGTVNGRAVGGLAWFLNLILSLSWMWWEVLSKPLGIILYIIFMLILIIFFSYFYAETLQLNPEDLAKNL 400 (489)
T ss_pred CCHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHEEECCHHHHHHHH
T ss_conf 32100220047846795003678888751200670154113316899999999999999977665520344889999999
Q ss_pred HHCCCCCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CC--CCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 963884476279857-99999999999999999999999999999999848-84--100257999999999999999999
Q gi|254780241|r 348 KKHGGFIPGIRPGDR-TALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTG-VP--VSLSGTSLLIIVSVVLDTIVQIQG 423 (444)
Q Consensus 348 ~k~g~~IpGiRPG~~-T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~-~~--~~~gGTslLI~Vgv~l~~~~qi~a 423 (444)
T Consensus 401 kk~G~~IPG~RpG~~~T~~yl~~~l~RLt~~Gs~fLg~ia~~P~~~~~~~~~lp~~~~lGGTSlLI~VgVa~~t~~q~~~ 480 (489)
T TIGR00967 401 KKQGMFIPGIRPGKEVTEKYLKRVLNRLTFVGSLFLGLIAILPNFLEAIGGVLPQSKGLGGTSLLIVVGVAIDTMKQLES 480 (489)
T ss_pred HHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 65386438645865799999976633578999999999999999999988642001122248999999999999999999
Q ss_pred HHHHHH--H
Q ss_conf 999985--2
Q gi|254780241|r 424 YLIAQQ--Y 430 (444)
Q Consensus 424 ~~~~~~--Y 430 (444)
T Consensus 481 ~~~~~n~~y 489 (489)
T TIGR00967 481 YLISRNSEY 489 (489)
T ss_pred HHHHHHCCC
T ss_conf 987642059