Cell, Vol. 83, 1171-1181, December 29, 1995, Copyright 0 1995 by Cell Press SecA Membrane Cycling at SecYEG Is Driven by Distinct ATP Binding and Hydrolysis Events and Is Regulated by SecD and SecF Anastassios Economou,*t Joseph A. Pogliano,* Jonathan Beckwith,t Donald B. Oliver,5 and William Wickner” *Dartmouth Medical School Department of Biochemistry Hanover, New Hampshire 03755-3844 tuniversity of Crete Department of Biology Iraklio, Crete Greece *Harvard Medical School Department of Microbiology and Molecular Genetics Boston, Massachusetts 02115 §Wesleyan University Department of Molecular Biology and Biochemistry Middletown, Connecticut 06459 Summary The SecA subunit of E. coli preprotein translocase promotes protein secretion during cycles of membrane insertion and deinsertion at SecYEG. This process is regulated both by nucleotide binding and hydrolysis and by the SecD and SecF proteins. In the presence of associated preprotein, the energy of ATP binding at nucleotide-binding domain 1 (NBDl) drives membrane insertion of a 30 kDa domain of SecA, while deinsertion of SecA requires the hydrolysis of this ATP. SecD and SecF stabilize the inserted state of SecA. ATP binding at NBDS, though needed for preprotein translocation, is not needed for SecA insertion or deinsertion. Introduction Secretory proteins cross the cytoplasmic membrane of Escherichia coli through preprotein translocase (Schatz and Beckwith, 1990; Wickner et al., 1991). Translocation is initiated by the binding energy of ATP and is driven by cycles of ATP binding and hydrolysis and by the proton motive force (pmf; Schiebel et al., 1991). The minimal stoichiometric subunits of translocase are the integral membrane trimer SecYEG (Brundage et al., 1990; Nishiyama et al., 1994; Douville et al., 1994, 1995) and the peripheral subunit SecA (Lill et al., 1989; Hart1 et al., 1990; Oliver, 1993; Douville et al., 1995). SecYEG and acidic phospholipids comprise the high affinity membrane receptor of SecA (Lill et al., 1990; Hart1 et al., 1990; Hendrick and Wickner, 1991). SecA has two nucleotide-binding domains (NBDs), the high affinity NBDl and the low affinity NBD2 (Mitchell and Oliver, 1993; see Figure 1A). SecA and SecY are the nearest neighbors of a preprotein arrested during its transmembrane transit (Joly and Wickner, 1993). In vitro reconstitution with purified components (Brundage et al., 1990) and the identification of discrete translocation intermediates (Tani et al., 1989; Schiebel et al., 1991) havedefineddistinctsubreactions(Hartletal., 1990; Schiebel et al., 1991; Joly and Wickner, 1993; Economou and Wickner, 1994). First, secretory chains associate with cytosolic factors such as the export-specific SecB chaperone (Randall and Hardy, 1995) and the signal recognition particle (Luirink et al., 1992). Second, SecB-preprotein complexes bind to SecA by the affinities of SecA for SecB (Hart1 et al., 1990) and preprotein (Lill et al., 1990; Hart1 et al., 1990). Third, upon binding to SecA, preproteins such as proOmpA (the major outer membrane protein A precursor) promote the release of ADP (Shinkai et al., 1991) and activate the ATPase activity of SecA (Lill et al., 1989). Fourth, ATP binding causes conformational changes of SecA. A 30 kDa domain of SecA inserts into and partly across the membrane (Economou and Wickner, 1994). Since ATP binding energy drives translocation of 20-30 aminoacyl residuesof the preprotein (Schiebel et al., 1991; Arkowitz et al., 1993) and preproteins are next to SecA throughout their membrane transit (Joly and Wickner, 1993), SecA membrane insertion may be directly coupled to translocation of preprotein segments (Economou and Wickner, 1994). Fifth, upon ATP hydrolysis, preproteins are released from SecA (Schiebel et al., 1991), and SecA deinserts (Economou and Wickner, 1994). Sixth, deinserted SecA exchanges with cytoplasmic SecA (Economou and Wickner, 1994). Seventh, the pmf translocates preprotein segments that are not engaged with SecA (Schiebel et al., 1991). Proteoliposomes with purified translocase (SecA and SecYEG) catalyze multiple rounds of translocation (Bassilana and Wickner, 1993) with 25% the rate and 50% the extent of translocation (per SecYEG) of E. coli inner membranes. Additional factors such as the membrane proteins SecD and SecF (Garde1 et al., 1987,199O) may be required for optimal catalysis. SecD and SecF are essential for cell viability at 23OC (Pogliano and Beckwith, 1994a). Overexpression of se&F suppresses leader peptide mutations (Pogliano and Beckwith, 1994a), and antibodies that bind to periplasmic domains of SecD cause accumulation of translocation intermediates (Matsuyama et al., 1993). SecD and SecF are not essential for in vitro ATP-driven translocation (Arkowitz and Wickner, 1994), and theirfunction is unknown. Overexpression of a 10 kb chromosomal region containing se&IF and downstream genes leads to membrane insertion of all of the cytoplasmic SecA (Kim et al., 1994). We now report that the energies of ATP binding and hydrolysis as well as translocase interaction with SecD and SecF govern the cycling of SecA between the inserted and deinserted states. ATP binding and hydrolysis at NBDl drive SecA membrane insertion and deinsertion, whereas ATP association at NBDP couples SecA cycling to preprotein translocation. Results SecA Mutations in ATP-Binding Sites SecA proteins with mutations in their ATP-binding sites (Mitchell and Oliver, 1993) have been used to determine the requirements of SecA insertion and deinsertion for Cell 1172 ATP-derived energy. D209NSecA has a substitution of an aspartyl for an asparaginyl residue at position 209 (Figure 1A) in NBDl. The D209N mutation has a drastic effect on SecA membrane deinsertion but leaves insertion unaffected. [1z51]D209N-SecA binds and inserts into inner membrane vesicles (IMVs) (Figure 1 C, closed circles) with kinetics similar to those of wild-type SecA (open squares) and has a 30 kDa domain inaccessible to protease (Figure 1 B, lane 4). This domain becomes accessible after membrane solubilization with the detergent Triton X-l 00 (lane 6; also see Economou and Wickner, 1994), and its accumulation requires ATP, preprotein, and physiological temperature (Figure lB), as does the wild-type protein (Economou and Wickner, 1994). However, once inserted, D209NSecA cannot be chased from the inserted state by an excess of either unlabeled SecA or unlabeled D209N-SecA (Figure lC), suggesting that D209NSecA is defective in membrane deinsertion (Economou and Wickner, 1994). As a result of defective deinsertion, D209NSecA is defective in proOmpA translocation (Figure 1D; also see Mitchell and Oliver, 1993; van der Wolk et al., 1993), in agreement with the observation that either the nonhydrolyzable ATP analog adenylyl-imidodiphosphate (AMP-PNP) or apyrase prevents SecA deinsertion and further translocation (Economou and Wickner, 1994). Since SecA membrane insertion and deinsertion can be mutationally uncoupled, D209NSecA offers a unique tool with which the energetic and ligand requirements of the SecA membrane insertion subreaction can be studied independently of deinsertion. proOmpA TX-l 00 C lime (min) D protease ATP Figure I. SecA Mutation + Uncouples Insertion + from Deinsertion (A) SecA mutants and NBDs. (8) D209NSecA membrane insertion. Reactions (100 11) contain TL buffer (50 mM Tris-HCI [pH 8.01, 50 mM KCI, 5 mM MgCb, 2 mM DTT), KM-9 IMVs (100 uglml), 200 pglml BSA, 5 mM phosphocreatine, IO ug/ml creatine kinase, SecB (48 uglml), and [‘251]D209N-SecA (- 100,000 cpm; 5.2 nM protomer). Reactions in lanes 2-6 had proOmpA (28 @g/ml), ATP (1 mM), or both, as indicated. Reactions were at 37OC (except lane 5, OOC) for 15 min, then digested with trypsin (1 mg/ml; 15 min. OOC). The sample in lane 6 received 5 ~1 of Triton X-100 (20% v/v) 1 min after the start of proteolysis. Samples were precipitated by 15% ice-cold trichloroacetic acid (TCA) and analyzed by SDS-PAGE and autoradiography. The arrowhead indicates the trypsin-inaccessible 30-31 kDa domain. (C) D209NSecA cannot deinsert. Complete translocation reactions minus ATP (four portions, 1.2 ml each) containing [‘251]SecA (open squares) or [1251]D209N-SecA (closed circles) were prepared as in (A) and prewarmed at 37OC for 2 min. After removal of 100 pl (0 time control), insertion was initiated by addition of 1 mM ATP, and 100 pl aliquots were removed as indicated. After 20 min (arrow), unlabeled prewarmed SecA or D209NSecA (both at 1 mglml) were added as indicated to 40 fig/ml (final). Aliquots were digested with proteinase K (1 mglml; 15 min, OOC), TCA-precipitated. and analyzed by SDSPAGE, autoradiography. and scanning densitometry. Membraneinserted SecA and D209NSecA at 20 min were set to 100%. (D) D209NSecA is defective in preprotein translocation. Reactions (100 al) contained [35S]proOmpA (80,000 cpm), TL buffer, 100 pg of KM-9 IMVs, SecA or D209NSecA (40 pglml), SecB (48 pglml), BSA (0.5 mglml), IO pglml creatine kinase. 5 mM creatine phosphate, and ATP (1 mM) as indicated. After 20 min at 37’C, samples were digested on ice with proteinase K (1 pg/ml, 15 min), mixed with 15% TCA, and analyzed by SDS-PAGE and fluorography (Economou and Wickner. 1994). SecA Membrane Insertion Is Driven by ATP Binding Energy Though D209NSecA has no translocation ATPase activity, it binds nucleotide (Mitchell and Oliver, 1993). We used nonhydrolyzable ATP analogs to test whether ATP binding energy drives SecA insertion. AMP-PNP drives insertion, giving rise to 20%-300/o more steady-state inserted SecA than does ATP at 37OC (Figure 2A). This interaction has the characteristics of a binding reaction, in that AMP-PNPdriven insertion is complete by 1 min and can occur at O°C, albeit more slowly(Figure 2A). In contrast, accumulation of membrane-inserted SecA during an ATP-driven reaction reaches steady state after 20 min (Figure 2A; Economou and Wickner, 1994). Strikingly, when SecA membrane insertion is driven by AMP-PNP or AMP-PCP (adenylyl-[6,y-methylenel-diphosphonate; data not shown), the preprotein is not required (Figures 2A and 28). Another analog, ATPyS (adenosine5’-0-[3-thiotriphosphate]) can also drive SecA insertion (Figure 2D). However, ATPyS can be slowly hydrolyzed, and ATPyS-SecA insertion is enhanced by preprotein. Furthermore, membrane insertion of D209NSecA or accumulation of the steady state of membrane-inserted SecA requires preprotein at all ATP concentrations (Figure 2C). In ATP-driven translocation, the preprotein may promote the release of ADP from SecA(Shinkai et al., 1991) a rate-limiting step for translocation (Shiozuka et al., 1990). Since D209N-SecA(which cannot hydrolyze ATP) can still insert, and since wild-type SecA insertion can be driven by nonhydrolyzable analogs, we conclude that SecA mem- ~~~;lation of SecA Cycling by ATP, SecD, and SecF A ATp #ml4 + + + AMP-PNP AMP-PNP ATP+pOA proOmpA TX-l 00 -I- + + + + 0% B AMP-PNP (PM) unlabeled ’ 0 0 10 20 30 %&4ed 40 RSOQK-SecA Time (min) Figure 3. NBD2 Is Not Essential for SecA Cyclrng (A) R509KSecA membrane insertion. All reactrons (as in Figure 1B) contain [‘251]R509K-SecA (- 110,000 cpm; 4 nM protomer). (B) R509KSecA can deinsert from the membrane. Translocation reactions containing [?]SecA (open squares) or [‘251]R509K-SecA (closed circles) were treated as in Figure 1C. After 20 min (arrow), unlabeled prewarmed SecA (1 mglml) or R509KSecA (1 mglml) was added as indicated to 40 pg/ml. Figure 2. SecA Membrane Insertion (A) [‘251]SecA (- 100,000 cpm; 4 nM protomer) was added to a SecA insertion reaction (see Figure 1) with 1 mM AMP-PNP (squares) or ATP (1 mM). Reactions without nucleotides were preincubated for 2 min at 37OC or 0°C and 100 fd was transferred to ice (0 time controls). SecA insertion was initiated by nucleotide addition, and aliquots (100 ul) were removed at indicated times. Samples were digested with proteinase K (1 mglml; 15 min; 0°C) TCA-precipitated, and analyzed by SDS-PAGE and scanning densitometry. (B) AMP-PMP-driven SecA insertion does not requrre preprotein. Aliquots of SecA insertion reactions (minus ATP) (98 ~1) were added to tubes containing AMP-PNP (1 ~1 in TL buffer; 0.0001-10 mM final concentration) and either proOmpA (1 fd in 6 M urea in TL buffer: 28 wglml final concentration) or an equal volume of 6 M urea in TL buffer. After 20 min at 37%, polypeptides were analyzed as in (A). (C) SecA and D209NSecA insertion requires preprotein. [‘*Sl]SecA and [‘251]D209N-SecA (each at - 100,000 cpm; 4 nM protomer) were added to 1.5 ml SecA insertion reactions (see Figure 1) containing 0.0001-10 mM ATP. One set of samples also contained 28 pglml proOmpA, while the other contained the equivalent amount of 6 M ureaITL buffer (-pOA). After 20 min at 37OC, samples were treated as in (A). (D) ATPyS-driven SecA membrane insertion. [1251]SecA (- 100,000 cpm; 4 nM protomer) was added to TL buffer, KM-9 IMVs (100 pgl ml), 200 vglml BSA, and SecB (48 uglml). After 2 min at 37%, aliquots (100 PI) were transferred to ice (0 time). ATPyS (1 mM) was added, and aliquots (100 ~1) were removed as indicated. Polypeptides were analyzed as in (A). brane insertion is driven by ATP binding energy and regulated by preprotein association. ATP binding energysimultaneously drives SecA membrane insertion (Figures 26 and 2C) and translocation of short preprotein segments (Schiebel et al., 1990). This suggests that the two events are coupled. To test whether ATP binding and hydrolysis at NED2 are required for SecA cycling, we examined R509KSecA, which has a substitution of an arginyl for a lysyl residue at position 509 within NBD2 (see Figure 1A; Mitchell and Oliver, 1993). The R509K mutation abolishes ATP binding to NBD2 but does not affect ATP binding at NBDl (Mitchell and Oliver, 1993). lodinated R509KSecA undergoes membrane insertion with the same requirements (Figure 3A) and kinetics (Figure 3B) as wild-type SecA. Furthermore, R509K-SecA can efficiently chase membraneinserted SecA and, unlike D209NSecA, completes deinsertion as efficiently as SecA itself (Figure 38). Since ATP hydrolysis is essential for deinsertion (Economou and Wickner, 1994; see Figure 1 C), R509K-SecA membrane cycling must be driven by its low translocation ATPase activity (approximately 4% of wild-type; Mitchell and Oliver, 1993) at NBDl (Mitchell and Oliver, 1993). Though R509KSecA interacts with preprotein and has normal membrane cycling, it does not support preprotein translocation (Mitchell and Oliver, 1993). This suggests that R509K-SecA undergoes futile cycles of SecA insertion and deinsertion. Thus, SecA cycling is driven by events at NBDl, while ATP interactions at NBD2 are needed to couple SecA movement to preprotein translocation. Cell 1174 123456 78 A 123 . ATP+proOmpA AMP-PNP proieolysis Figure 4. SecA (min) Membrane Insertion into SecYEG Proteoliposomes [?]SecA (71,000 cpm; 4 nM protomer) was added to SecYEG proteoliposomes (5.7 ~1; 58 pg of reconstituted protein/ml; lanes 1-6) or acidic phospholipid liposomes (lanes 7 and 8) plus TL buffer, SecB (46 wg/ ml), and BSA (200 pglml). Samples in lanes 3,4, and 6 also contained ATP (1 mM) and proOmpA (26 pglml), while reactions in lanes 5 and 6 contained AMP-PNP (1 mM). After 5 min at 37OC, samples were transferred to ice and incubated for 15 min with proteinase K (0.5 mgl ml). Polypeptides were analyzed as in Figure 2. Markers of M, 43, 30, and 21 kDa are indicated. 0.4 . DF0 DF+++ 03 SecA Insertion into SecYEG Proteoliposomes Only SecA bound at SecYEG undergoes membrane insertion (Economou and Wickner, 1994; Douville et al., 1995). To test whether SecYEG is sufficient for SecA cycling, we examined [1251]SecA insertion into proteoliposomes with purified SecYEG (Brundage et al., 1990; Bassilana and Wickner, 1993). Limited (1 min) proteolysis of reactions withATPandproOmpA(Figure4,lane3)orwithAMP-PNP (lane 5) revealed an - 30 kDa proteolytic intermediate as observed in native membranes (Economou and Wickner, 1994). In the absence of translocation ligands, less than 15% of the 30 kDa proteolytic intermediate is observed (lane 1). A similar low amount of intermediate can be derived from [‘251]SecA bound to acidic phospholipid liposomes (lane 7). This background level is unaffected by translocation ligands (lane 6). Therefore, ATP- and AMPPNP-driven SecA insertion into reconstituted proteoliposomes occurs at SecYEG. Though there is substantial SecA insertion into SecYEG proteoliposomes, the proteoliposome-inserted 30 kDa SecA is unstable during longer (15 min) proteolytic digestion on ice (Figure 4, lanes 4 and 6). In contrast with integral membrane proteins, whose apolar membrane anchor domains block transbilayer movement, the polar SecA is capable of moving across the membrane at 0% (see Figure 2A). Since SecA inserted into IMVs is stable to proteolysis for up to 2 hr (Economou and Wickner, 1994), additional stabilizing factors may be present in inner membranes but absent from the purified system. We find (below) that SecD and SecF stabilize membrane-inserted SecA. Membranes Depleted of SecD and SecF To determine whether SecD and SecF stabilize membrane-inserted SecA, we constructed JP352, a derivative of E. coli MC41 00 in which chromosomal se&If operons are expressed under the araf3 operon promoter (Pogliano and Beckwith, 1994b). JP352 thus synthesizes SecD and SecF only when grown in the presence of arabinose. Membranes from JP352 grown in arabinose (Figure 5A, lane 3) have - 3-fold increased levels of SecD and SecF Figure 5. Membrane Depletion of SecD and SecF (A) lmmunostaining of membrane preparations with various levels of SecD and SecF. I MVs were from MC41 00 grown in M63,0.2% glucose (lane 1) and from JP352 (P,,::yajCsecDfl grown in 0.2% arabinose, 0.2% glucose (lane 3) or, after overnight growth in arabinose, grown for 6 hr in arabinose-free medium (lanes 2). IMV polypeptides were analyzed by SDS-PAGE (15% acrylamide gels [lto et al.. 19801 for SecA, leader peptidase [Lep], SecD, and SecF, and high Tris gels (Douville et al., 19951 for SecY and SecG). Proteins were transferred electrophoretically to PVDF membranes and immunostained (Douville et al., 1995). Positions of molecular weight markers (in kilodaltons) are indicated. (B) Scatchard analysis of SecA binding to urea-treated SecDF+++ or SecDF- IMVs was as described (Hart1 et al., 1990; Economou and Wickner, 1994). compared with MC4100 grown in glucose (lane 1). JP352 membranes prepared after growth without arabinose are essentially devoid of SecD and SecF (lane 2). The three membrane preparations have similar polypeptide profiles (data not shown) and similar levels of SecY, SecG, SecA, and leader peptidase (Figure 5A). Furthermore, depletion or overexpression of SecD and SecF does not affect the activity of SecYEG as a high-affinity SecA receptor as determined by Scatchard analysis (Figure 5B), showing that SecD and SecF are not components of the SecA receptor. In agreement with previous observations (Arkowitz and Wickner, 1994), depletion of SecD and SecF does not detectably perturb translocase or the membrane composition. IMVs with varying SecD and SecF content were treated with 6 M urea to inactivate endogenous SecA (Cunningham et al., 1969) and were used in assays of SecA membrane cycling and preprotein translocation. SecD and SecF Stabilize Membrane-Inserted SecA To test whether SecD and SecF depletion affects SecA membrane cycling, IMVs with varying levels of SecD and Regulation 1175 of SecA Cycling by ATP, SecD, and SecF (A) Membranes depleted of SecD and SecF lack stably inserted SecA. SecA insertion reactions (see Figure 1) contained IMVs (100 pglml) of varying SecD and SecF content plus 20 PM CCCP. After 10 min at 37%, samples were transferred to ice, proteolyzed, and analyzed as in Figure 2. The amount of membrane-inserted SecA domain was calculated after correction for the size difference. (6) Steady-state yield of membrane-inserted [‘?]SecA depends on the level of the SecD and SecF proteins. IMVs were prepared from strain JP352 grown to an ODmo of 0.6 in M63 with 0.2% arabinose (lane 1) or from successive generations of the same cells grown without arabinose as described in Experimental Procedures. IMVs (3 Kg/lane) In lanes 2-6 represent five successive generations of cells. IMVs (100 pglml) were added to translocation/SecA cycling reactions, and the 30-31 kDa domain of SecA (bottom; arrowhead) was analyzed as In (A). (C) Quantitation of data from (8). (D) Effect of pmf on SecA membrane insertion. Urea-treated KM-9 IMVs (200 uglml) were added to translocation/SecA cycling reactions (20 min, 37OC) with 0 to 10 mM ATP. Reactions marked plus pmf contain 5 mM succlnate to establish a transmembrane proton gradient (Schiebel 81 al., 1991). SecA after only a limited reduction of SecD and SecF (Figure 8B), suggesting that loss of inserted SecA is not an indirect effect. The amounts of inserted SecA are roughly proportional to the concentration of SecF (Figure 6C). SecD and SecF are required for the maintenance of pmf (Arkowitz and Wickner, 1994), but this is unlikely to be related to their role in SecA cycling. The IMVs employed here are proton permeable as a result of F, removal (Geller et al., 1986; Yamadaet al., 1989), and all reactionscontain the uncoupler CCCP (carbonyl cyanide m-chlorophenylhydrazone). Moreover, pmf does not affect ATP-driven [1251]SecA insertion into IMVs that show wild-type levels of SecD and SecF but that lack the F,FbATPase (Klionsky et al., 1984). Imposition of a pmf by addition of succinate stimulates SecA insertion at up to 10 PM ATP (Figure 6D), in agreement with pmf lowering the apparent K, for ATP of preprotein translocation (Shiozuka et al., 1990). However, no such stimulation was observed at physiological (1 mM) ATP concentrations (Figure 6D). It is therefore unlikely that the pmf plays a major role in normal SecA membrane cycling. IMVs lacking SecD and SecF could, like SecYEGproteoliposomes, allow SecA insertion but fail to stabilize the inserted state during proteolysis at O°C. Reactions containing [?]SecA and either SecDF- or DF+++ membranes were incubated for 20 min at 37OC and proteolyzed at 0%. After 1 min at O’X, a proteolytic intermediate of 30-31 kDa was observed in both SecDF+++ (Figure 7A, lane 2) and SecDF- (lane 1) IMVs. Membranes lacking SecD and SecF have 400/o-60% less 30 kDa material, which, after 15 min of proteolysis, becomes completely digested (lane 3). In contrast, in reactions containing SecDF+++ membranes, approximately 60% of the 30 kDa domain seen after 1 min of digestion (lane 2) remains protease-inaccessible (lane 4). We next performed a systematic analysis of the kinetics of proteolysis of [1*51]-labeled 30 kDa SecA either in aqueous solution or in reactions that contain membranes with different levels of SecD and SecF, either with or without ATP and proOmpA (Figure 78). Soluble SecA yields significant amounts of a 30 kDa fragment at short times of proteolysis ([A] in Figure 7B), but these are substantially reduced in the presence of ligands ([B] in Figure 78) or IMVs ([Cl and [E]) and could be unrelated to the domain of SecA that undergoes membrane insertion at SecYEG. Significant levels of the 30 kDa intermediate were seen after short digestion times with SecDF- or SecDF+++ membranes but only after preprotein translocation had occurred ([D] and [F] in Figure 78; contrast with [C] and [El, no preprotein or ATP). However, only with SecD and SecF is the 30 kDa domain stabilized to remain inaccessible after prolonged digestion ([F] in Figure 78). SecF, i.e., wild-type levels(SecDF+), depleted(SecDF-), or 3-fold overexpressed (SecDF+++), were added to complete translocation reactions containing [l*SI]SecA (Economou and Wickner, 1994). Strikingly, IMVs depleted of SecD and SecF maintain very low amounts of steady-state inserted SecA (Figure 6A). IMVs show reduced inserted state of SecD and SecF Are Not Needed to Stabilize Membrane-Inserted SecA When ATP Hydrolysis Is Prevented SecA deinsertion is driven by ATP hydrolysis (Economou and Wickner, 1994). We therefore examined whether the proteolytic stability of the membrane-inserted [1251]-labeled 30 kDa domain of SecA requires ATP hydrolysis. Com- 0 0 50 100 150 Total SecA (,q /ml) 200 0Lzl 0123456 SecF (artxbary umts) Figure 6. Membranes Depleted High Levels of Membrane-Inserted of SecD SecA and SecF Do Not Sustain Cell 1176 A 123456 7 0 SWDF Proteolysis(min) un 123456 . SecDF ATP Figure 7. SecD and SecF Stabilize Membrane-Inserted SecA (A) Effect of SecD and SecF on proteolysis of the 30 kDa domain of SecA. TranslocationlSecA cycling reactions containing SecDF- or SecDF+++ IMVs (100 uglml) plus [‘251]Se~A (- 100,000 cpm; 4 nM protomer) and 20 nM CCCP were incubated at 37’C for 20 min, transferred to ice, digested with trypsin (1 min or 15 min as indicated), and analyzed by SDS-PAGE and autoradiography. Full-length SecA (open arrow) and the 30 kDa domain (closed arrow) are indicated. (B) Kinetics of proteolysis of the 30 kDa domain of SecA. Complete translocation reactions (graphs D and F) and reactions without membranes (A and B) or that contained SecDF- or SecDF”’ membranes but no translocation ligands (C and E, respectively) were analyzed as in Figure 7A. The plus and minus symbols in the right margin indicate the presence or absence of ATP and proOmpA. The 30 kDa domain of SecAwasquantitated bypcountingof gel-excised bands. Reactions in (C)-(F) contained 100 nglml IMVs. (C) Effect of ATP hydrolysis on stability of inserted SecA. Complete SecA insertion reactions (50 nl; lanes 5-8) and reactions with AMPPNP (1 mM; lanes 5-6) containing [‘251]SecA and IMVs with different SecD and SecF contents (as indicated) were prepared as described in the legend to Figure 1. Samples in lanes 1-4 were incubated for 16 min, then mixed with apyrase (2.5 U/50 nl reaction) and incubated for 2 min, chilled on ice, and analyzed as in Figure 1. Full-length SecA (open arrow) and the 30 kDa domain (closed arrow) are indicated. (D) Membrane insertion of [1251]D209N-SecA (143,000 cpm; 4 nM protomer) in the absence of SecD and SecF. TranslocationlSecA cycling reactions contained IMVs (100 uglml) of varying SecD and SecF content (as indicated) and 20 nM CCCP. Lanes 4-6 also contain ATP (1 mM), while lanes l-3 have an equal volume (1 nl) of TL buffer. The 30 kDa domain is indicated (closed arrow). plete translocation reactions or reactions containing AMPPNP were incubated for 20 min at 37OC. ATP was removed by a 2 min incubation with apyrase. All samples were then proteolyzed on ice for 1 or 15 min. Apyrase addition increases the amounts of 30 kDa SecA by 30% (Economou and Wickner, 1994). Strikingly, even in the absence of the SecD and SecF, removal of free ATP stabilizes the membrane-inserted 30 kDa domain that remains after proteolytic digestion of the rest of SecA (Figure 7C, lane 1 versus lane 3; compare with Figure 7A, lanes 1 and 3, without apyrase). AMP-PNP also stabilized this domain against proteolysis in the absence of SecD and SecF (lane 7). The 30 kDa proteolytic fragment may thus be capable of ATP hydrolysis. To test the role of ATP hydrolysis in the stability of membrane-inserted SecA further, we examined D209NSecA insertion into membranes that have, or lack, SecD and SecF. [1251]D209N-SecA was added to translocation reactions with IMVsof varying SecD and SecF content. D209NSecA insertion requires ATP (Figure 7D, lanes 4-6) but not SecD and SecF (lane 5). D209NSecA that is inserted into SecDF- IMVs gives rise to a 30 kDa proteaseinaccessible domain that is stable after 15 min of digestion (Figure 7D). Therefore, when ATP hydrolysis is prevented by either a mutation in the NBDl of SecA, by ATP removal by apyrase, or by a nonhydrolyzable ATP analog, the stability of membrane-inserted SecA becomes independent of the presence of SecD and SecF. However, under physiological conditions of ATP hydrolysis, the SecD and SecF proteins regulate the stability of inserted SecA. If SecD and SecF stabilize the inserted form of SecA after ATP hydrolysis, their depletion may affect preprotein translocation. Under conditions allowing multiple turnovers, there is a 30%~50% reduction in the apparent V,,, for proOmpA translocation (Figure 8A) and a 20%-30% reduction of translocation ATPase activity (Figure 86, closed circles) in the absence of SecD and SecF. This correlates with the reduction in the steady-state levels of membraneinserted SecA seen in the absence of SecD and SecF (see Figure 7). Cells depleted of SecD and SecF are cold-sensitive (Pogliano and Beckwith, 1994a), but it is unlikely that altered SecA cycling is directly responsible. Comparisons of assays containing SecDF+++ and SecDF- IMVs at 37OC and at 23OC reveals that translocation ATPase activity is reduced by 3- to 5-fold at 23OC (Figure 86) and preprotein translocation and SecA membrane insertion by less than 2-fold (Figures 8C and 8D, respectively) in either the presence or absence of SecD and SecF. Perhaps, in the absence of SecD and SecF, the failure to stabilize the inserted SecA may exacerbate the inherent cold sensitivity of the in vivo translocation process (Pogliano and Beckwith, 1993). Discussion Preproteins initiate translocation by binding to SecA (Hart1 et al., 1990) triggering a remarkable cascade of events (Schiebel et al., 1991; Economou and Wickner, 1994). This Regulation 1177 of SecA Cycling Figure 8. Effect of SecD Translocation ATPase by ATP, and SecF Se&, Depletion and SecF on Translocation and (A) ProOmpA translocation. [YS]proOmpA (1,500,OOO cpmlml. O-40 uglml) was added to 50 ul translocation reactions containing SecDF+++or SecDF- IMVs and 20 HIM CCCP. Samples were removed after 10 min at 37OC and digested on ice with TPCK-treated trypsin (1 mgl ml; 15 min). Polypeptides were analyzed as in Figure 1. Translocated [%]OmpA was visualized by fluorography and quantitated by scanning densitometry. (B)Translocation of ATPase. Urea-treated IMVs(100 pg/ml)from either MC4100 (DF’) or JP352 grown with arabinose (DF”‘) or afler removal of arabinose (DF-) were incubated at 37% or at 23OC as indicated in TL buffer containing SecA (40 rig/ml) and proOmpA (28 nglml) in 50 nl reactions. Minus preprotein background incubations contained 6 M urea, 50 mM Tris-HCI (pH 8.0) instead of proOmpA (0.5 and - 1.3 nmol P, per mg of IMV protein at 0 and 45 min, respectively), which were subtracted from the values shown. At indicated times, the P, content of 10 nl aliquots was determined (Lill et al., 1989; Douville et al., 1995). (C and D) In vitro translocation of proOmpA and membrane insertion of SecA in the absence of SecD and SecF is not sensitive to cold. [%]proOmpA translocation (C)and SecA membrane insertion (D) into DF~ or DF+++ IMVs were assayed as described in Figures 2 and 3, except that reactions were incubated at 37°C and at 23”C, the temperature at which in vivo cold sensitivity can be observed (Pogliano and Beckwith, 1994a). The protease-inaccessible 30 kDa domain of SecA in (D) is indicated by arrowheads. association activates cycles of SecA membrane insertion and deinsertion (Economou and Wickner, 1994) that are driven by the ATPase activity of SecA (Lill et al., 1989) and constitute the central engine of the ATP-driven segment of preprotein translocation. Using mutations in the NBDs of SecA and ATP ana- logs, as well as in vitro biochemical reconstitution experiments, we have dissected SecA membrane cycling and translocation into subreactions. These results and others lead to a working hypothesis. Deinserted SecA-ADP is bound to SecYEG. Preprotein binding to SecA (Hart1 et al., 1990) causes conformational changes that promote nucleotide exchange (Shinkai et al., 1993) of ATP for ADP at NBDl. The 30 kDa domain of SecA then inserts into the membrane at SecYEG, and 20-30 aminoacyl residues of the preprotein coinsert. This may be promoted by ATP binding at NBD2. SecD and SecF interact with inserted SecA, SecYEG, or both. ATP hydrolysis at NBDl influences ATP hydrolysis at NBD2. Translocated domains of the preprotein are released from SecA, and SecA deinserts, allowing pmf-driven translocation of preprotein domains not bound to SecA. The succeeding preprotein domain can then bind to SecA. The cycle of SecA insertion and deinsertion is governed by preprotein binding and dissociation, ATP binding and hydrolysis, and SecD and SecF. The data strongly indicate that the 30 kDa domain of SecA becomes protease-inaccessible by insertion into the membrane rather than by assuming a protease-resistant conformation or by being protected from protease by other polypeptides. First, proteolysis of translocation reactions only yields 30 kDa SecA when each of the components needed fortranslocation, namely preproteins, ATP, physiological temperature, and SecYEG, is present (Economou and Wickner, 1994; Douville et al., 1995). Second, disruption of membrane integrity in the presence of protease by sonication, nonionic detergents, or a single freeze-thaw cycle allows digestion of the 30 kDa domain, whereas sonication or freeze-thaw treatments, followed by addition of protease to the resealed vesicles, preserves the integrity of the 30 kDa domain (Economou and Wickner, 1994). Third, membrane-inserted SecA can be proteolyzed or biotinylated from the periplasmic surface of the membrane (Kim et al., 1994). Fourth, a cross-linker, attached to a translocation-arrested preprotein, reacts with SecA whenever it is at a position to react with SecY (Joly and Wickner, 1993). Fifth, after proteolysis has removed all but the 30 kDa domain of SecA, this domain is stabilized by SecD and SecF (Figures 6 and 7) inner membrane proteins that are largely exposed to the periplasm. It is unlikely that the 30 kDa domain of SecA is protected from protease by the small cytoplasmic loops of SecD and SecF. Finally, in addition to causing a single, irreversible SecA membrane insertion (Figures 2A and 2B), AMP-PNP causes a single “loopful” of 20-30 aminoacyl residues of the preprotein to undergo a single, irreversible membrane insertion (Schiebel et al., 1991). This strongly suggests that SecA membrane cycling drives preprotein movement. The two nucleotide-binding sites of SecA have very distinct roles. The observation that D209N inserts normally but is blocked in deinsertion allowed independent study of the insertion step. ATP binding at NBDl drives a 30 kDa domain of SecA to insert into the membrane at SecYEG (Figure 4). Concomitant with SecA movement, limited preprotein translocation is observed (Schiebel et al., 1991; Cell 1178 Arkowitz et al., 1993). NBD2 is essential for translocation but apparently is not required for SecA membrane insertion, since a mutant that cannot bind ATP at NBD2 cycles normally. Translocated preproteins are released from SecA upon ATP hydrolysis (Schiebel et al., 1991) which could take place at both NBDl and NBD2. Mutations in either NBD reduce (R509K) or abolish (D209N) the translocation ATPase activity of SecA, suggesting that ATP interactions at the two sites are interdependent. The finding that removal of free ATP by apyrase stabilizes inserted SecA (Figure 7D) and prevents its deinsertion (Economou and Wickner, 1994) indicates that additional ATP binding at NBDl may be required for deinsertion. Other membrane transporters, such as the cystic fibrosis transmembrane conductance regulator (Anderson and Welsh, 1992; Gunderson and Kopito, 1995) and the multidrug resistance P-glycoprotein (Gill et al., 1992), also contain two ATPbinding domains with distinct functions. Is the ATP-driven SecA membrane insertion mechanistically coupled to preprotein translocation? After 1 min of proteolysis at 0°C has removed most of SecA, the stability of the remaining membrane-inserted 30 kDa domain is remarkably different in the presence of ATP or of the nonhydrolyzable analog AMP-PNP (Figure 7A versus lanes 5-8 of Figure 7C). This suggests that ATP can be hydrolyzed by the 30 kDa proteolytic fragment. The D209N point mutation in NBDl (Figure 7D) and AMP-PNP have similar effects on 30 kDa stability, suggesting that this proteolytic fragment of SecA contains NBDl. ATP bound to the membrane-inserted 30 kDa domain at NBDl may also be apyrase-inaccessible (Figure 7C). Strikingly, a region of SecA between NBDl and NBD2 can be crosslinked to preproteins in solution (Kimura et al., 1991) and point mutations at positions 373 and 488 have a Prl phenotype (Fikes and Bassford, 1989; Bieker-Brady and Silhavy, 1992). This region may bind leader peptides (Lill et al., 1990; Akita et al., 1990) and mature preprotein domains (Andersson and von Heijne, 1993; Schiebel et al., 1991; Arkowitz et al., 1993). Mature preprotein segments recognized by SecA have a consistent size of 25-40 aminoacyl residues (Andersson and von Heijne, 1993; Schiebel et al., 1991). A preprotein-binding site on the 30 kDa/NBDl domain of SecA would offer a simple link between SecA membrane insertion and insertion of 20-30 aminoacyl residues of the preprotein. How does the preprotein regulate SecA cycling? Preprotein binding causes a conformational change in SecA and ADP release (Shinkai et al., 1991) indicative of an altered structure at the nucleotide-binding sites. AMP-PNP may differ from ATP in that it may bind to SecA of either conformation, the forms with or without bound proOmpA, to promote the insertion (Figure 28). AMP-PNP may not only promote forward movement but also prevent deinsertion, thus alleviating the requirement for preprotein. Without preprotein, membrane-bound SecA has a basal ATPase activity (Lill et al., 1990) and modest SecA membrane insertion (less than 15% of that seen with preprotein; Economou and Wickner, 1994). These results and nucleotide binding studies (Lill et al., 1989; Matsuyama et al., 1990; Shinkai et al., 1991; Mitchell and Oliver, 1993) demonstrate that the preprotein is not essential for ATP binding to SecA. This conclusion is strengthened by the finding that the binding energy of AMP-PNP also drives high levels of SecA membrane insertion in the absence of preprotein. However, normal SecA cycling and membrane insertion of the hydrolysis-defective D209NSecA require preprotein. Furthermore, SecA membrane insertion, driven by the poorly hydrolyzable ATPyS, is increased 3-fold in the presence of preprotein. Preprotein binding might increase the affinity of SecA for ATP. In the ATP- and ATPyS-driven reactions, preprotein may overcome a rate-limiting step of translocation such as ADP release (Shiozuka et al., 1990; Shinkai et al., 1991). While SecYEG is the only integral membrane protein that is essential for SecA cycling (Figures 4 and 7; Economou and Wickner, 1994; Douville et al., 1995) optimal cycling and translocation also require SecD and SecF. These two proteins, which may form a dimer (Pogliano and Beckwith, 1994a; Sagara et al., 1994), are of clear importance in vivo (Garde1 et al., 1990; Bieker-Brady and Silhavy, 1992; Pogliano and Beckwith, 1994a). We propose that SecD and SecF regulate SecA deinsertion, presumably by interacting with either SecYEG or SecA. This supports previous proposals for a direct interaction of SecD and SecF with translocase (Bieker-Brady and Silhavy, 1992) late in the catalytic cycle (Garde1 et al., 1990; Bieker-Brady and Silhavy, 1992; Matsuyama et al., 1993; Pogliano and Beckwith, 1994a). Such interactions could be disrupted by a-SecD antibodies (Matsuyama et al., 1993). The aggreement between in vivo and in vitro experiments that use overexpression, depletion, or antibody inactivation suggest that it is unlikely that SecD and SecF affect SecA cycling indirectly. This is further supported by the similar properties of SecD and SecF-depleted IMVs (Figures 6 and 7) and SecYEG proteoliposomes (Figure 4) and by the rapid effects of SecD inactivation in vivo (Matsuyama et al., 1993; Pogliano and Beckwith, 1994a). Associations between the polytopic SecD and SecF proteins and translocase could involve membrane domains of SecD and SecF, or their large periplasmic regions (- 45 kDa and - 11 kDa, respectively; Garde1 et al., 1990; Pogliano and Beckwith, 1994b), which are required for function (Matsuyama et al., 1993). Domains of membrane-inserted SecA are exposed to (or near) the periplasm (Kim et al., 1994; Economou and Wickner, 1994) and SecY (Joly and Wickner, 1993) and could also be near SecD and SecF. SecD and SecF may also prevent the leakage of ions via translocase, required for the maintenance of a stable pmf (Arkowitz and Wickner, 1994). Several questions derive from our working model. First, how is ATP binding energy transformed into conformational changes of the two SecA protomers? Second, what interactions within SecA ensure communication between NBDl and NBD2? Third, how does preprotein interact with SecA, and what is the role of NBD2 in coupling SecA membrane penetration to preprotein transfer? Fourth, what is the catalytic role of SecD and SecF interactions with translocase? To address these questions, we will need to use Regulation 1179 of SecA Cycling by ATP, SecD, and SecF pure proteins in a reconstituted in vitro system and to determine the 3-dimensional structures of translocase and its domains. The requirement for SecD and SecF for stability of inserted SecA may offer a biochemical assay for their functional purification. Experimental Procedures Bacterial Strains and Membrane Purification D209N-SecA. R509KSecA, and Tl OSN-SecA were purified from strain BL21.19 (~DE3, supF(Ts), trp(Am), Zch::TnlO, secA73(Am), clpA379:: kan, recA::cat; Mitchell and Oliver, 1993). To manipulate se&F expression, we constructed strain JP352 (araA.774, A[argF-lac]Ul69, rpsL7.50, relA7, tbi, flb5307, deoC7, ptsf25. recA::cat. tgt::kan, araCk, P,,::yajCsecDF), a derivative of MC41 00 (araD739, A(argNacJU769, rpsL750, relA 7, fbi, flbB5307, deoC7, ptsF25, fbsR; Silhavy et al., 1984) in which the chromosomal yajCSecDFoperon was fused 3’to the arabinose promoter Psao. First, in plasmid pKJ1, which carries the yajCSecDF operon and upstream sequences (Pogliano and Beckwith, 1994b). tgt, a nonessential gene lying upstream of yajCSecDF, was replaced with a kanamycin resistance gene @an). The kan gene was isolated on a Pstl DNA fragment of plasmid pUC4K (Pharmacia), was blunt-ended with Klenow fragment polymerase, and was cloned into the Smal site of tgr. Second, tgt:: kan isolated as an EcoRV fragment was ligated into the Ndel site upstream of P,o::yajSecDFof pGAP1 (Pogliano and Beckwith, 1994a) to form pGAP12. In pGAP12, the kan gene is transcribed divergently from yajCSecDF. Third, the chromosomal tgt-yajCsecDFwas replaced with that from linearized pGAP12 by homologous recombination in strain JCB43.3 (recD7903::miniTnlO). Fourth, the tgr::kan-Peao::yajCsecDFregion was transduced into JP313(MC4100 araA774). Finally, the recA::cat allele was transduced into the resulting strain, yielding JP352. IMVswere from E. coli MC4100, JP352, and KM9 (uric ::TnlO, re/Al, spoT7, metB7; Klionsky et al., 1984). Media and antibiotics were according totheprotocolsof Sambrooketal. (1989). Cultures weregrown at 37% with aeration in M63 medium, 10 uglml thiamine, and glucose or arabinose (0.2% w/v). For complete depletion of SecD and SecF, JP352 (P,,o::yajCsecDF) cells were grown to an OD, of 0.6 in M63, glucose (0.2% w/v), and arabinose (0.2% w/v). harvested (5 min, 10,000 rpm, Sorval JA20 rotor, 4°C) washed in medium without arabinose, and resuspended In M63 containmg glucose (0.2% w/v) to an ODsoo of 0.3. Cells were further grown to an OD, of 0.6 and diluted 1:2 with M63 with glucose (0.2%). This process was repeated for a total growth of 6.5 hr, when SecD and SecF are depleted beyond rmmunodetection (Frgure 4). IMVs were prepared from 8-12 liters of culture (Douville et al., 1995) and treated with 6 M urea (35 mm, O°C; Cunningham et al., 1989). a-SecY antisera, by measuring translocation ATPase, and by translocation of [%]proOmpA. SecYEG proteoliposomes and acidic phospholipid vesicles (Economou and Wickner, 1994) were frozen in liquid nitrogen and stored at -80% lodinated SecA SecA, D209NSecA, and R509KSecA were iodinated and assayed for binding to urea-treated IMVs (100 pglml) as described (Economou and Wickner, 1994). Fluorograms were scanned with an Apple Color OneScanner with Ofoto software (version 2.02) and were analyzed with NIH Image software (version 1.52) on a Macintosh Quadra 650 computer. Radioactivity of [‘251]-labeled polypeptides was determined by y-counting excised gel bands. Sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) using 15% polyacrylamide or high Tris gels (Douville et al., 1995), fluorography. and protein transfer to PVDF membranes were as described (Economou and Wickner, 1994). lmmunostaining was with rabbit antisera to synthetic peptides, a-SecF and a-SecD (Arkowitz and Wickner, 1994) a-SecY (Brundage et al., 1990) and a-SecG (Douville et al., 1994) or against purified proteins, a-SecA (Lill et al., 1989) and a-leader peptidase (Wolf et al., 1982). Acknowledgments A. E. dedicates this paper to the memory of Dr. Apostolos Economou. Correspondence should be addressed to A. E. at Dartmouth. We are grateful to Marilyn Rice Leonard, Bernadette Hils, and Barbara Atherton for expert assistance, and to Franck Duong and Lily Karamanou for useful discussions. This work was supported by grants from the National Institutes of General Medical Sciences. A. 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