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