HHsearch alignment for GI: 254780129 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=97.60  E-value=0.00058  Score=41.89  Aligned_cols=125  Identities=19%  Similarity=0.209  Sum_probs=72.9

Q ss_pred             CCCCHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEECCC---CCHHHHHHHHHHHCCCCCCEE
Q ss_conf             71348999999999967981999689998899999999999740899489972331---013788999985155346069
Q gi|254780129|r    3 LVLKPHQIVMVNWLLSHDRCALWASMGSGKTVSVLFALSTIKILDPRPVLIIAPLR---VAQYVWKDEVERWSAFSDMTV   79 (220)
Q Consensus         3 ~~Lrp~Q~~a~~~~~~~~~~~l~~~~G~GKT~~ai~~~~~~~~~~~~~~LIi~P~s---~~~~~W~~e~~~~~~~~~~~~   79 (220)
T Consensus        57 lG~r~fDVQliGg~~LH~G~IAEMkTGEGKTL~AtLp-aYLNAL~GkGVHvVTVNdYLA~RD~e~m~~v~~FLGL~VG-l  134 (904)
T TIGR00963        57 LGLRPFDVQLIGGIVLHKGKIAEMKTGEGKTLVATLP-AYLNALTGKGVHVVTVNDYLARRDAEWMGQVYRFLGLSVG-L  134 (904)
T ss_pred             HCCCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHH-HHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCEEE-E
T ss_conf             3785618999999998089667831488628999999-9987651796279963504448889987899968493688-8


Q ss_pred             EEEECCCCCCCCCCCCCCCEEEECHHH----HH----CCCCCCCCCCCCCCCCCCHHHCC
Q ss_conf             986112101122345676627865667----31----00000000247200002512201
Q gi|254780129|r   80 SSLIGSERQRIKALNTPAHLYIINFEN----IP----WLVKMKLDHWDFATIVVDESTKL  131 (220)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~i~~~~~----l~----~~~~~~~~~~~~~~iIiDEaH~~  131 (220)
T Consensus       135 ~~~~m~~~eRr~aY~cDI-TY~TNnELGFDYLRDNM~~~~ee~-vqR~f~FAIIDEVDSI  192 (904)
T TIGR00963       135 ILSSMSPEERREAYACDI-TYGTNNELGFDYLRDNMALSKEEK-VQRPFNFAIIDEVDSI  192 (904)
T ss_pred             ECCCCCHHHHHHHHCCCE-EEECCCCCCHHHHHHHHHCCHHHH-HCCCCCCEEEEEECCE
T ss_conf             617998589999854981-653265420246667641150121-0167222688642446