HHsearch alignment for GI: 254780925 and conserved domain: TIGR00916
>TIGR00916 2A0604s01 protein-export membrane protein, SecD/SecF family; InterPro: IPR003335 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 . Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. 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. This family consists of various prokaryotic SecD and SecF protein export membrane proteins. The SecD and SecF equivalents of the Gram-positive bacterium Bacillus subtilis are jointly present in one polypeptide, denoted SecDF, that is required to maintain a high capacity for protein secretion. Unlike the SecD subunit of the pre-protein translocase of E. coli, SecDF of B. subtilis was not required for the release of a mature secretory protein from the membrane, indicating that SecDF is involved in earlier translocation steps . Comparison with SecD and SecF proteins from other organisms revealed the presence of 10 conserved regions in SecDF, some of which appear to be important for SecDF function. Interestingly, the SecDF protein of B. subtilis has 12 putative transmembrane domains. Thus, SecDF does not only show sequence similarity but also structural similarity to secondary solute transporters .; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=100.00 E-value=1.3e-38 Score=246.38 Aligned_cols=227 Identities=46% Similarity=0.819 Sum_probs=205.2
Q ss_pred CCCHHHCCCHHHCC--CC--CCCCCCC-CCCCCCCEE---ECCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 21011001000001--23--2211000-000133200---0123334432101357887654443211000012233333
Q gi|254780925|r 278 GARRFFEVTRDNIG--KP--LAVVLDG-RVLTAPVIN---QAIPSGKAQISGNFTIETAGILAAMLRAGSLPIKLNIVEE 349 (833)
Q Consensus 278 ~~~~~~~~~~~~~~--~~--~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 (833)
T Consensus 5 G~~~f~~~T~~~~g~q~~~~la~vl~~~~~~s~~~vg~~~~~i~GG~~~I~G~F~~~~A~~LA~~Lr~GaLp~~~~~~e~ 84 (247)
T TIGR00916 5 GAKIFADFTAKNIGTQKRESLAIVLDNAKVISAPVVGEAIQPITGGSGQITGNFTIEEAQDLALLLRSGALPAPIKILEE 84 (247)
T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEECCEEEEECCCEEEEECCCCHHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf 88899997654415887220210024505787411100022100771589427878999999999987412567178610
Q ss_pred CEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH--HHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q ss_conf 201100110245788888899999999999973032035666677777--788999999998-76655789999998653
Q gi|254780925|r 350 RNVGADLGSDSIYKGTCAIVAGLVLIVLFMIVLYGKWGLVADFSIFLN--VILTLALLSLLG-ATLTLPSIAGIVLGIGL 426 (833)
Q Consensus 350 ~~~~~~~~~~~~~~~~~~~~~~lvvvvv~l~l~~~r~~li~~iaIpis--ii~tl~~l~~~G-~tLn~~sl~gl~~~~g~ 426 (833)
T Consensus 85 r~iGp~lG~~~~~~g~~A~~~~l~~v~~Y~~~ry~~~~~~a~~~~l~~Dl~~~~~a~~s~~~G~~l~L~~iAgll~~iG~ 164 (247)
T TIGR00916 85 RTIGPSLGAELIRAGILALLIALVLVLLYMLLRYEWRGAIAAIALLVHDLVILILAVLSLFGGATLTLPGIAGLLLIIGY 164 (247)
T ss_pred EECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEECHHHHHHHHHHHHH
T ss_conf 34475556899999999999999999999999999999999999999999999999999875900278999999999978
Q ss_pred HHHHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHHH
Q ss_conf 35789999999876310----2555799999999999999997655689998887614554431-147887788899877
Q gi|254780925|r 427 AVDSNILVNERIREENR----KNQSVFCSLDMGFSRAYSTIFDSNITALIATVVLFFFGGGAVR-GFAITMGLSILISMF 501 (833)
Q Consensus 427 ~vd~~i~~~e~~~~~~~----~~~~~~~a~~~~~~~~~~~i~~~~~t~~~~~~~l~~~~~~~~~-~f~~~~~~~~~~~~~ 501 (833)
T Consensus 165 svdd~VviFdRiREelr~~k~~g~~~~~a~~~g~~~tl~ri~~t~~TTlla~~~L~~fG~g~ik~gFal~l~iG~~~g~y 244 (247)
T TIGR00916 165 SVDDTVVIFDRIREELRDIKYKGRTLREAINLGFNQTLSRIIDTNVTTLLAALALFVFGGGAIKKGFALTLLIGVIAGTY 244 (247)
T ss_pred HHHCEEEEECCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf 76455478735088888641148979999998899999998998699999999999971013431147878788788644
Q ss_pred HHH
Q ss_conf 775
Q gi|254780925|r 502 TAI 504 (833)
Q Consensus 502 ~~~ 504 (833)
T Consensus 245 Ssi 247 (247)
T TIGR00916 245 SSI 247 (247)
T ss_pred CCC
T ss_conf 049