HHsearch alignment for GI: 254780991 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=96.41 E-value=0.0077 Score=39.79 Aligned_cols=98 Identities=26% Similarity=0.303 Sum_probs=73.9
Q ss_pred CCCCEECCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHH--HHHHHHCCCC
Q ss_conf 72000013310168899999986302321246621478999999998635966873257645789999--9999731898
Q gi|254780991|r 556 DPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLERIE--IIRDLRLGKF 633 (805)
Q Consensus 556 dp~ieir~~~~qvddl~~ei~~~~~~~~R~l~~~~tkr~~e~l~~~~~~~~i~~~~~h~~~~~~~r~~--il~~~~~g~~ 633 (805)
T Consensus 409 ~~DlvY~te~~Kw~Av~~e~~~~h~~GqPvLvGT~svE~SE~LS~lL~~~~I~H~VLNAKPENh~rEAeIia~AG~kGA- 487 (904)
T TIGR00963 409 LPDLVYKTEEEKWKAVVDEIKEIHAKGQPVLVGTTSVEKSELLSKLLKERGIPHNVLNAKPENHEREAEIIAQAGRKGA- 487 (904)
T ss_pred CCCCEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC-
T ss_conf 7773464768899999999999874689877752217778999999985789812247874467789999996088864-
Q ss_pred CEEEEHHHHHCCCCCCCCCEEEEEC
Q ss_conf 6999845875357877711799962
Q gi|254780991|r 634 DVLVGINLLREGLDIPECGLVAILD 658 (805)
Q Consensus 634 diLvgt~~~akGlD~p~v~lV~i~d 658 (805)
T Consensus 488 -VTIATNMAGRGTDI---~LGGN~~ 508 (904)
T TIGR00963 488 -VTIATNMAGRGTDI---KLGGNPD 508 (904)
T ss_pred -EEEEECCCCCCCCE---EECCCHH
T ss_conf -16762478776450---3178788