HHsearch alignment for GI: 254780382 and conserved domain: TIGR00963
>TIGR00963 secA preprotein translocase, SecA subunit; InterPro: IPR000185 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 . SecA is a cytoplasmic protein of 800 to 960 amino acid residues. Homologs of secA are also encoded in the chloroplast genome of some algae as well as in the nuclear genome of plants . It could be involved in the intraorganellar protein transport into thylakoids.; GO: 0005524 ATP binding, 0006605 protein targeting, 0006886 intracellular protein transport.
Probab=99.53 E-value=5.1e-14 Score=109.31 Aligned_cols=280 Identities=17% Similarity=0.249 Sum_probs=168.6
Q ss_pred CCCCCCHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCCC
Q ss_conf 79878989999999997699799982798517899999999998606521478279998285899999999987410233
Q gi|254780382|r 20 GYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNY 99 (465)
Q Consensus 20 ~~~~pt~iQ~~~i~~~l~g~dvi~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~~~~~~ 99 (465)
T Consensus 58 G~r-~fDVQliGg~~LH~G~--IAEMkTGEGKTL~AtLpaYLNAL~Gk----G--VHvVTVNdYLA~RD~e~m~~v~~FL 128 (904)
T TIGR00963 58 GLR-PFDVQLIGGIVLHKGK--IAEMKTGEGKTLVATLPAYLNALTGK----G--VHVVTVNDYLARRDAEWMGQVYRFL 128 (904)
T ss_pred CCC-CHHHHHHHHHHHCCCC--EEEECCCCCHHHHHHHHHHHHHHCCC----C--CEEEEECCHHHHHHHHHHHHHHHHC
T ss_conf 785-6189999999980896--67831488628999999998765179----6--2799635044488899878999684
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCHH-HHHHHCC------CCCCCCCEEECCCCCCCCC-CC----------
Q ss_conf 3221000012222222222210112210221023-3332000------0001210010255100000-00----------
Q gi|254780382|r 100 NLTVALLIGGIPFEAQNKKLERGADVLICTPGRI-LDHFNRG------KLLMNNIEILVIDEADRML-DM---------- 161 (465)
Q Consensus 100 ~l~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rl-~~~l~~~------~~~l~~~~~lViDEah~l~-~~---------- 161 (465)
T Consensus 129 GL~VGl~~~~m~~~eR--r~aY~cDITY~TNnELGFDYLRDNM~~~~ee~vqR~f~FAIIDEVDSILIDEARTPLIISGp 206 (904)
T TIGR00963 129 GLSVGLILSSMSPEER--REAYACDITYGTNNELGFDYLRDNMALSKEEKVQRPFNFAIIDEVDSILIDEARTPLIISGP 206 (904)
T ss_pred CCEEEEECCCCCHHHH--HHHHCCCEEEECCCCCCHHHHHHHHHCCHHHHHCCCCCCEEEEEECCEEECCCCCCCCCCCC
T ss_conf 9368886179985899--99854981653265420246667641150121016722268864244642333686523576
Q ss_pred ------CCH---------------HHHHHHHHHHC-C-CC--------CCCCCCCC---C-CCCC---C-------CCCC
Q ss_conf ------100---------------35788754310-2-22--------22333432---1-1222---2-------1111
Q gi|254780382|r 162 ------GFI---------------PYIQNITSLVP-F-TR--------QTLLFSAT---M-TDEL---Q-------KVSE 196 (465)
Q Consensus 162 ------gf~---------------~~i~~i~~~~~-~-~~--------q~i~~SAT---~-~~~v---~-------~l~~ 196 (465)
T Consensus 207 ae~~~~~Y~ev~~~~~~l~e~~~~p~a~~~~~~l~e~W~~dY~vDeK~r~v~Lte~G~~~WaE~~L~~~g~~~~~~nLyd 286 (904)
T TIGR00963 207 AEKSTEKYLEVNKLVDPLKETDKLPQANEVAKALKEKWDVDYEVDEKNRNVLLTEKGMKKWAEDLLGVDGIIKGAVNLYD 286 (904)
T ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCEEECCCCEEEECCCCHHHHHHHHHHHHHHHHHHCCCHH
T ss_conf 67863010017878866416655750445689986311677035104174651401178999875324321443013012
Q ss_pred ------------------CCCCCCC------------------------------------CCCCCCCCCCCCCCC----
Q ss_conf ------------------2222210------------------------------------013444321234642----
Q gi|254780382|r 197 ------------------NFLQNPK------------------------------------RIEVNTPSSTAETIE---- 218 (465)
Q Consensus 197 ------------------~~l~~~~------------------------------------~i~v~~~~~~~~~i~---- 218 (465)
T Consensus 287 ~~n~~~~hyi~nALkA~~lf~kDvdYIV~dgeV~IVDEFTGRim~GRR~SdGLHQAiEAKE~V~I~~En~T~AtITyQNf 366 (904)
T TIGR00963 287 LENSPLIHYILNALKAKELFEKDVDYIVRDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNF 366 (904)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCEEEECCEEEEEEEECCCCCCCCCCCCHHHHHHHHHCCCEEECCCCEEEEHHHHHH
T ss_conf 45334588899999999987439835888887899873058338896124225799997468601035522440445767
Q ss_pred ------------------------------------------CCCCCCCCCCCHHHHHHHHCCCCCCCCCEEEEEECCCC
Q ss_conf ------------------------------------------11111222211024443210122345650677621344
Q gi|254780382|r 219 ------------------------------------------HCFVATYAQYSKKCALLQQLLQSQDTMKNGIIFCNQKK 256 (465)
Q Consensus 219 ------------------------------------------~~~~~~~~~~~~k~~~l~~l~~~~~~~~k~iIF~~t~~ 256 (465)
T Consensus 367 FrlY~KLsGMTGTA~TE~~EF~~IYnL~Vv~vPTNrp~~R~D~~DlvY~te~~Kw~Av~~e~~~~h~~GqPvLvGT~svE 446 (904)
T TIGR00963 367 FRLYEKLSGMTGTAKTEEEEFEKIYNLEVVVVPTNRPVIRKDLPDLVYKTEEEKWKAVVDEIKEIHAKGQPVLVGTTSVE 446 (904)
T ss_pred HHHHHHHCCCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHH
T ss_conf 65426544687756899998404577513551667723446777734647688999999999998746898777522177
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCHHHHHH-HHHHHCCCCCEEEEEHHHHHHHHCC
Q ss_conf 322222222223322222345420333234-4442013552388884664644078
Q gi|254780382|r 257 NVVNLCHSLEKQGFSVCAIHGNIDQRSRMK-ILSNFKEGTIQLMVASDLAARGLDI 311 (465)
Q Consensus 257 ~~~~l~~~L~~~g~~v~~lhg~l~~~~R~~-~~~~F~~g~~~vLV~Td~~~~GiDi 311 (465)
T Consensus 447 ~SE~LS~lL~~~~I~H~VLNAKPENh~rEAeIia~-AG~kGAVTIATNMAGRGTDI 501 (904)
T TIGR00963 447 KSELLSKLLKERGIPHNVLNAKPENHEREAEIIAQ-AGRKGAVTIATNMAGRGTDI 501 (904)
T ss_pred HHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHH-CCCCCCEEEEECCCCCCCCE
T ss_conf 78999999985789812247874467789999996-08886416762478776450