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Originally published In Press as doi:10.1074/jbc.M511402200 on December 20, 2005

J. Biol. Chem., Vol. 281, Issue 12, 7899-7906, March 24, 2006
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The Brl Domain in Sec63p Is Required for Assembly of Functional Endoplasmic Reticulum Translocons*

Andrew J. Jermy1, Martin Willer2, Elaine Davis1, Barrie M. Wilkinson2, and Colin J. Stirling3

From the Faculty of Life Sciences, Michael Smith Building, University of Manchester, Oxford Road, Manchester M13 9PT, United Kingdom

Received for publication, October 20, 2005 , and in revised form, December 13, 2005.


   ABSTRACT
TOP
 ABSTRACT
INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS
 DISCUSSION
 REFERENCES
 
Protein translocation into the endoplasmic reticulum occurs at pore-forming structures known as translocons. In yeast, two different targeting pathways converge at a translocation pore formed by the Sec61 complex. The signal recognition particle-dependent pathway targets nascent precursors co-translationally, whereas the Sec62p-dependent pathway targets polypeptides post-translationally. In addition to the Sec61 complex, both pathways also require Sec63p, an integral membrane protein of the Hsp40 family, and Kar2p, a soluble Hsp70 located in the ER lumen. Using a series of mutant alleles, we demonstrate that a conserved Brl (Brr2-like) domain in the COOH-terminal cytosolic region of Sec63p is essential for function both in vivo and in vitro. We further demonstrate that this domain is required for assembly of two oligomeric complexes of 350 and 380 kDa, respectively. The larger of these corresponds to the heptameric "SEC complex" required for post-translational translocation. However, the 350-kDa complex represents a newly defined hexameric SEC' complex comprising Sec61p, Sss1p, Sbh1p, Sec63p, Sec71p, and Sec72p. Our data indicate that the SEC' complex is required for co-translational protein translocation across the yeast ER membrane.


   INTRODUCTION
TOP
 ABSTRACT
 INTRODUCTION
EXPERIMENTAL PROCEDURES
 RESULTS
 DISCUSSION
 REFERENCES
 
Proteins destined for the secretory pathway are initially translocated across the membrane of the endoplasmic reticulum (ER)4 at pore-forming structures known as translocons. Two pathways have been described by which this translocation can occur. The first occurs co-translationally in a manner dependent upon the actions of both signal recognition particle (SRP) and its cognate membrane receptor (SR). In this pathway, nascent precursors are targeted to the ER membrane, whereupon the ribosome engages with the translocon, enabling the growing polypeptide chain to be inserted directly into the translocon pore (for a review, see Ref. 1). In the second pathway, fully translated precursors are targeted to the translocon in a post-translational manner that requires cytosolic chaperones and the membranous receptor Sec62p (for a review, see Refs. 2 and 3). In this pathway, translation and translocation are uncoupled, so the luminal chaperones Kar2p (4), Lhs1p, and Sil1p (5, 6) are required to pull the precursor across the membrane.

These two translocation pathways converge at the trimeric Sec61 complex (comprising Sec61p, Sbh1p, and Sss1p), which forms the aqueous channel through which secretory precursors pass (7, 8). A substantial body of data indicates that Sec63p and Kar2p contribute directly to the driving force for post-translational translocation, with the ATPase activity of Kar2p being activated by the luminal J-domain within Sec63p (9, 10). However, both Sec63p and Kar2p are further required for SRP-dependent translocation (11, 12). This would be consistent with evidence from the mammalian system indicating that the Kar2p homologue BiP is involved in sealing the luminal face of the translocation channel in a reaction that is dependent upon a luminal J-domain (13–15). It has yet to be established whether the mammalian homologue of Sec63p contributes this J-domain activity, but association of mammalian Sec63 with Sec61{alpha} has been observed (16, 17), making it an obvious candidate for this role.

In addition to the conserved luminal J-domain in Sec63p, the protein also contains two distinct regions within the cytosolic carboxyl-terminal domain that are conserved in all Sec63p homologues identified to date (Fig. 1A). The extreme COOH-terminal 52 residues are predominantly acidic, and the last 14 of these have been shown to interact directly with Sec62p (18, 19). Preceding this acidic domain is a 371-residue region that is homologous to a repetitive domain present in Brr2p and other related members of the U5 200-kDa family of RNA helicases (20, 21). The two homologous domains within Brr2p have been shown to interact directly with various protein components of the yeast spliceosome, so it has been suggested that these may represent a novel protein binding motif (22). Whereas no previous function has been described for this Brl domain within Sec63p, removal of the entire cytosolic region (including the Brl domain) has been shown to lead to defects not only in Sec62p-dependent translocation but also in SRP-dependent translocation (11). Thus, the cytosolic region of Sec63p must be required for more than simply the binding of Sec62p.

A high resolution crystal structure has been solved for the homologous SecY translocon complex from the archaebacterium M. jannaschii (23). This reveals an aperture within the trimer, leading to the suggestion that the translocation pore may be formed by a single Sec61-SecY trimer. However, other evidence suggests that the functioning ER translocon is an oligomeric structure comprising 3–4 copies of the Sec61 complex (24–27). Similarly, the functional translocon in Escherichia coli comprises four copies of the related SecYEG complex (28, 29). It has therefore been suggested that the translocon may in fact comprise up to four protein-conducting channels, of which only one might be required for the translocation of an individual precursor molecule (23). In light of this model, it becomes clear that it is not yet known whether oligomerization of the Sec61 complex is essential for translocation, nor is it clear how such oligomers might interact with other components of the translocation machinery.

In this paper, we have addressed the role of Sec63p in translocon structure and function. We employ a series of mutant derivatives of Sec63p to determine the functional significance of two distinct conserved regions within the cytosolic COOH terminus of Sec63p. We show that whereas the 52-residue acidic domain at the extreme COOH terminus is required for post-translational translocation, it is nonessential for the co-translational reaction. We further define a novel Brl domain and show that deletion of residues 550–611 within this region results in a complete defect in ER translocation by either pathway. We go on to use blue native gel analysis to examine Sec61p-containing protein complexes and to determine that the Brl domain of Sec63p is required for the assembly of both the 380-kDa SEC complex and a newly defined 350-kDa SEC' complex. Functional analysis of various mutant strains has revealed that cells lacking the SEC and SEC' complexes are incompetent for protein translocation into the yeast endoplasmic reticulum. Our results indicate that the SEC and SEC' complexes correspond to functional translocons in the yeast ER.


   EXPERIMENTAL PROCEDURES
TOP
 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
RESULTS
 DISCUSSION
 REFERENCES
 
Materials—DNA restriction and modification enzymes were purchased from Roche Applied Science. [14C]L-amino acid mixture was from PerkinElmer Life Sciences. Oligonucleotides were from MWG-Biotech AG (Table 1). Site-directed mutagenesis was performed using the QuikChange site-directed mutagenesis kit from Stratagene according to the manufacturer's instructions. All other reagents were from Roche Applied Science, Sigma, or Melford Laboratories (Suffolk, UK) at analytical grade.


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  		TABLE 1
Oligonucleotides used in this study

 
SEC63 Allele Construction—Truncation alleles of Sec63p were constructed by cassette integration into the diploid MET3-Sec63 strain BYY4 as previously described for the sec63-{Delta}28 strain BYY8 (11). Strains AJY1, containing a sec63-{Delta}52 allele, and AJY2, containing a sec63-{Delta}113 allele, were generated by transformation of BYY4 with a linear 3HA-His3MX6 cassette (30). Oligonucleotides for amplification of the cassette were SEC63D52_for plus 63d/R1 for AJY1 and SEC63D113_for plus 63d/R1 for AJY2. The plasmid-borne sec63-{Delta}550–611 allele was made by introducing BglII sites into pJKR2 (12) by site-directed mutagenesis using the oligonucleotides Sec63cid1a, Sec63cid1b, Sec63cid2a, and Sec63cid2b. pAJ7 was then made by the excision of the BglII fragment, resulting in residues 550–611 of the SEC63 open reading frame being replaced by an arginine and a serine residue.

Yeast Strains and Growth Conditions—Yeast strains (Table 2) were grown on standard media as previously described (11). Repression of the MET3 promoter in minimal medium for total extract preparation and pulse labeling was achieved by the addition of L-methionine to early log phase cultures to a final concentration of 2 mM and growing for 7 h. For microsome preparation, MET3 repression was achieved by growth in YPD for 7 h.


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  		TABLE 2
Saccharomyces cerevisiae strains

 
Radiolabeling and Immunoprecipitation—10 A600 equivalents of cells were pulse labeled for 5 min with the [14C]L-amino acid mixture, and immunoprecipitation of the Sec62p-dependent substrate CPY and SRP-dependent substrate DPAP B was carried out as previously described (11). Samples were analyzed by SDS-PAGE and phosphorimaging analysis.

In Vitro Translocation Assays—Microsome preparation and in vitro translocation assays were carried out as previously described (12). In brief, {alpha}-factor and DHC{alpha}-factor mRNAs were transcribed from linearized template with Ribomax (Promega) T7 RNA polymerase and Ribomax SP6 RNA polymerase, respectively, according to the manufacturer's instructions. Translations/translocations in the presence of [35S]L-methionine were carried out in the presence of microsomes (50 A280/ml) added to a final concentration of 10%. Samples were analyzed by SDS-PAGE and phosphorimaging analysis, and quantification was carried out using AIDA (version 2.31).

Blue Native PAGE Analysis—BN-PAGE was adapted from the method previously described (31). Two A280 units of microsomes were harvested by centrifugation at 10,000 x g, resuspended in 100 µl of S-buffer (2% digitonin, 250 mM NaCl, 2 mM dithiothreitol, 20 mM Tris-HCl, pH 7.6, 5 mM MgOAc, 12% glycerol, 1% (v/v) protease inhibitor mixture (Sigma)) and then incubated on ice for 30 min. Unsolubilized material was removed by centrifugation at 10,000 x g, and the ribosomes were removed from the supernatant by centrifugation for 1 h at 400,000 x g. The supernatant was then diluted to 180 µl as S-buffer but minus NaCl and digitonin, followed by the addition of 20 µl of 10x sample buffer (5% Coomassie Brilliant Blue G250, 500 mM 6-aminocaproic acid, 100 mM Bistris-HCl, pH 7.0). 0.8 A280 unit aliquots were loaded onto a 6–12% polyacrylamide gradient gel (buffered with 500 mM 6-aminocaproic acid, 50 mM Tris-HCl, pH 7.0). The samples were run at 200 V for 18 h with Coomassie-containing cathode buffer (50 mM Tricine, pH 7.0, 15 mM Bistris-HCl, pH 7.0, 0.02% Coomassie Brilliant Blue G250) and then for a further 3 h at 500 V in Coomassie-lacking buffer (50 mM Tricine, pH 7.0, 15 mM Bistris-HCl, pH 7.0). Anode buffer (50 mM Bistris-HCl, pH 7.0) was constant throughout. The samples were then transferred to polyvinylidene difluoride membrane and analyzed by Western blotting. Complex sizes were determined using the high molecular weight calibration kit for native electrophoresis (Amersham Biosciences). Antibodies for all Western analysis performed have been described previously (11).


Figure 1
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  		FIGURE 1.
Truncations of the cytosolic domain of Sec63p. Heterozygous diploid strains were constructed, where a wild type copy of SEC63 was under the control of the MET3 promoter and the SEC63 allele on the opposite chromosome was engineered to express altered versions of Sec63p, as described under "Experimental Procedures." A, conserved domain structure of wild type Sec63p with three transmembrane domains (TM1–T3), a luminal J-domain, cytosolic Brl-domain, and acidic domain, as indicated. Three truncations were analyzed lacking 28 (Sec63-{Delta}28p), 52 (Sec63-{Delta}52-HAp), or 113 (Sec63-{Delta}113-HAp) residues from the carboxyl-terminal, the last two of which were engineered to contain an HA tag. B, microsomes were made from BYY4 (wild type (wt); lane 1), BYY8 (sec63-{Delta}28; lane 2), AJY1 (sec63-{Delta}52-HA; lane 3), and AJY2 (sec63-{Delta}113-HA; lane 4) after incubation for 7 h in YPD, causing repression of the pMET3 allele of SEC63. 0.5 A260 equivalents were resolved by 7.5% SDS-PAGE, followed by Western blotting with antisera specific to Sec63p, HA, or Sec61p, as indicated.

 

   RESULTS
TOP
 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS
DISCUSSION
 REFERENCES
 
Truncations of the Cytosolic Domain of Sec63p—Sec63p contains a 423-residue cytosolic region (32) composed of two distinct conserved domains, a 371-residue Brl domain followed by a 52-residue acidic domain at the extreme COOH terminus (Fig. 1A). We sought to further dissect the functions of the cytosolic domain of Sec63p by utilizing a series of deletion mutant alleles (Fig. 1A). In addition to the sec63-{Delta}28 allele (11), two further HA-tagged truncated alleles were generated lacking either the COOH-terminal 52 (sec63-{Delta}52-HA) or 113 residues (sec63-{Delta}113-HA). These were created in the diploid strain BYY4 in which one copy of the SEC63 gene has been placed under the control of the MET3 promoter. The phenotypic effects of potentially lethal mutations engineered into the second copy of SEC63 can then be assessed following repression of the MET3-sec63 allele in the presence of methionine. The three truncated alleles analyzed (sec63-{Delta}28, sec63-{Delta}52-HA, and sec63-{Delta}113-HA) were unable to support growth on media containing methionine (data not shown). To assess the phenotypes of the various mutant alleles, cells were first grown to log phase in liquid culture lacking methionine before being shifted into methionine-containing medium as described under "Experimental Procedures." Expression of the various truncated forms of Sec63p was confirmed by Western blotting using antisera raised against the COOH-terminal domain of Sec63p (Fig. 1B). The Sec63-{Delta}113-HA protein was detected only weakly, but this was due to the loss of important epitopes, as evidenced by the signal obtained using anti-HA antibodies (compare lanes 3 and 4 in Fig. 1B). These results demonstrated the expression of the various deletion constructs and also confirmed that the growth conditions effectively depleted wild-type Sec63p following repression of the MET3 promoter.


Figure 2
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  		FIGURE 2.
Translocation defects in SEC63 truncation mutants. Methionine repression of cells from strains described in the legend to Fig. 1B was carried out, and 10 A600 units were then pulse-labeled for 5 min with [14C]L-amino acid mixture, followed by immunoprecipitation of the Sec62p-dependent precursor CPY and the SRP-dependent precursor DPAP B. 5 A600 equivalents were resolved by 8% SDS-PAGE and analyzed by autoradiography. Translocated forms of CPY (p1 and p2CPY) and DPAP B (mDPAP B) as well as untranslocated forms (ppCPY and pDPAP B) are indicated. Tunicamycin treatment (Tun; lane 1) is used to provide translocated but unglycosylated (pCPY and pDPAP B) precursors as a marker for translocation defects.

 
Next we examined protein translocation in these mutant strains by pulse labeling and immunoprecipitation of the Sec62p-dependent substrate CPY and the SRP-dependent substrate DPAP B (Fig. 2). As previously reported (11), Sec63-{Delta}28p causes an accumulation of the precursor form of CPY but not of the precursor form of DPAP B (Fig. 2, lanes 4 and 5), indicating a functional defect that is specific to the post-translational translocation pathway. As might then be expected, both Sec63-{Delta}52p and Sec63-{Delta}113p were also defective in CPY translocation. However, whereas Sec63-{Delta}52p led to an accumulation of low levels of pDPAP B, the Sec63-{Delta}113p mutant was found to be completely defective in DPAP B translocation (Fig. 2, lanes 6–9). Thus, whereas removal of the acidic domain has only a mild effect upon the translocation of SRP-dependent precursors, additional disruption of the Brl domain in Sec63-{Delta}113p abolished ER protein translocation by either pathway.


Figure 3
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  		FIGURE 3.
Deletion of residues 550–611 of the cytosolic domain of Sec63p. A, an in-frame excision of the region of the SEC63 open reading frame corresponding to residues 550–611 was created as described under "Experimental Procedures." B, the haploid strain BYY5 (pMET3-SEC63) transformed with pRS316 (vector control), pJKR2 (wild type SEC63), or pAJ7 ({Delta}550–611) was plated onto selective media either lacking or supplemented with 2 mM methionine and incubated for 3 days. C, cells from strains described in B underwent methionine repression of genomic SEC63 as described previously. Total cell extracts were made, and 0.5 A600 equivalents were resolved by 10% SDS-PAGE followed by Western blotting for Sec63p. Wild type Sec63p and the {Delta}550–611 gene product are indicated.

 
Construction of a {Delta}550–611 Deletion Allele—The Brl domain is clearly required for SRP-dependent translocation; however, the loss of the carboxyl-terminal acidic domain in the sec63-{Delta}113 truncation could account for the observed Sec62p-dependent translocation defect. In order to test whether the Brl domain might also be required for Sec62-dependent translocation, a deletion allele was constructed that lacked only residues 550–611 (Fig. 3A). Phenotypic analysis of cells expressing the sec63-{Delta}550–611 allele was again performed following in vivo repression of the MET3-regulated copy of SEC63. The deletion allele proved unable to support growth of BYY5 cells on methionine medium, demonstrating that residues 550–611 are required for the essential function of Sec63p (Fig. 3B). Expression of the {Delta}550–611 mutant protein was confirmed by Western blotting analysis, in which a band of the expected size was clearly evident (Fig. 3C). The signal is weaker than for full-length Sec63p, but again this is likely to be due, at least in part, to the loss of epitopes as seen for the sec63-{Delta}113 allele.

Translocation Phenotypes of the {Delta}550–611 Mutant Cells—BYY5 cells expressing {Delta}550–611p were then examined by pulse labeling either before or after repression of the MET3-sec63 allele. Precursor forms of both CPY and DPAP B were found to accumulate under repression conditions, indicating defects in both translocation pathways (Fig. 4A). These defects were then confirmed in vitro using a reconstituted translation/translocation system (12). Microsomes were prepared from the various strains following methionine depletion and then tested for the in vitro translocation of either the Sec62p-dependent substrate {alpha}-factor or the SRP-dependent substrate DHC{alpha}-factor (Fig. 4B). Microsomes prepared from cells expressing a plasmid-borne copy of SEC63 were found to translocate both precursors with similar efficiencies (~30%; Fig. 4C). However, in the case of membranes prepared from cells expressing sec63-{Delta}550–611, the translocation efficiency for both pathways was reduced to the same background levels observed in the vector control (Fig. 4C). Together, these data demonstrate that disruption of the Brl domain of Sec63p perturbs both SRP-dependent and Sec62p-dependent translocation.

Sec63p Is Present in Two Distinct Translocon-associated Complexes—The Brl domain is predicted to be involved in protein-protein interactions, so we reasoned that its role might be to promote Sec63p binding to some component of the translocation machinery. In order to test this hypothesis, we first sought to characterize translocon-related protein complexes from solubilized yeast membranes using a BN-PAGE approach (33). Yeast microsomes were prepared from the wild type strain W303{alpha} and solubilized in S-buffer containing 2% digitonin and resolved by 6–16% BN-PAGE. Western blotting analysis revealed four distinct complexes, with apparent molecular masses of 140, 280, 350, and 380 kDa, respectively, each of which contained all three components of the Sec61 complex, namely Sec61p, Sbh1p, and Sss1p (Fig. 5A).

In order to determine which if any of the four Sec61p-containing complexes corresponds to the post-translational SEC complex, we next probed with antibodies specific for Sec62p and Sec63p (Fig. 5B, lanes 2 and 3) as well as Sec71p and Sec72p (data not shown). Sec63p was found to be present in three distinct complexes, two of which co-migrated with the 350- and 380-kDa complexes detected with anti-Sec61 antibodies (Fig. 5B, lanes 1 and 2). Both Sec71p and Sec72p exhibited the same pattern of distribution as Sec63p, being present in both the 350- and 380-kDa complexes as well as an additional complex that migrates at ~200 kDa (Fig. 5B, lane 2). This 200-kDa complex most likely corresponds to the previously characterized "Sec63p complex" identified by Brodsky and Schekman (34). In the case of Sec62p, immunoblotting identified a single immunoreactive band at 380 kDa (Fig. 5B). These data are entirely consistent with the 380-kDa species being equivalent to the heptameric SEC complex first identified in cross-linking studies (35). The data further suggest that the 350-kDa species corresponds to a hexameric subcomplex, which we term SEC', comprising Sec61p, Sss1p, Sbh1p, Sec63p, Sec71p, and Sec72p but not Sec62p.


Figure 4
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  		FIGURE 4.
The {Delta}550–611 allele is defective in SRP-dependent and Sec62p-dependent translocation both in vivo and in vitro. A, BYY5 cells containing pJKR2 (SEC63; lanes 1–3), pRS316 (vector control; lanes 4 and 5), or pAJ7 ({Delta}550–611; lanes 6 and 7) were treated with methionine, as described previously. Cells were pulse-labeled, and translocation substrates were immunoprecipitated as described previously. 5 A600 equivalents were resolved by 8% SDS-PAGE and analyzed by autoradiography. The different forms of CPY and DPAP B are indicated as previously described. B, upper panel, in vitro translation/translocation reactions were carried out using RNA encoding pp{alpha}f(lanes 1–3) or DHC{alpha}-f (lanes 4–6), and microsomes were prepared following repression of genomic SEC63. Reactions were resolved by 12.5% SDS-PAGE. Microsomes are from BYY5 + pRS316 (vector control; lanes 1 and 4), pJKR2 (SEC63; lanes 2 and 5), or pAJ7 ({Delta}550–611; lanes 3 and 6). Lower panel, 0.5 A280 equivalents of the microsomes described were resolved by 10% SDS-PAGE and Western blotted with anti-Sec63p and anti-Sec61p antibodies. Sec61p, Sec63p, and Sec63-{Delta}550–611p are indicated. C, AIDA software (version 2.31) was used to quantify the percentage translocation of each precursor from five data sets.

 


Figure 5
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  		FIGURE 5.
BN-PAGE analysis of Sec61p-containing complexes from yeast ER membranes. A, two A260 units of yeast microsomes from W303{alpha} were prepared for BN-PAGE as described (see "Experimental Procedures"). 0.8 A260 equivalents were resolved by 6–16% BN-PAGE and analyzed by Western blotting for Sec61p (lane 1), Sbh1p (lane 2), and Sss1p (lane 3). Four complexes are observed (indicated by asterisks) migrating at approximate sizes of 140, 280, 350, and 380 kDa, containing all three components of the trimeric Sec61p complex. Size markers are taken from the high molecular weight calibration kit for native electrophoresis (Amersham Biosciences). B, as in A, but samples were resolved by 6–12% BN-PAGE and then subjected to Western blot for Sec61p (lane 1), Sec63p (lane 2), and Sec62p (lane 3).

 
In order to confirm this, we next examined Sec61-containing complexes in membranes depleted of either Sec62p or Sec63p. Membranes were prepared from methionine-treated cultures of either W303{alpha} (wild type), BYY5 (pMET3-SEC63), or MWY50 (pMET3-SEC62) and then resolved by either 6–12% BN-PAGE (Fig. 6, A and B, upper panels) or 10% SDS-PAGE (Fig. 6, A and B, lower panels) before Western blotting for Sec61p, Sec63p, or Sec62p. In membranes depleted of Sec62p, we found that the 380-kDa complex could no longer be detected with antibodies to either Sec61p or Sec63p. These results confirm that all three proteins are components of a single 380-kDa complex corresponding to the SEC complex. None of the other complexes were absent following Sec62p depletion (Fig. 6A), which confirms our finding that they do not contain Sec62p (see Fig. 5B) but further indicates that the appearance of these complexes is independent of any activity of Sec62p. Intriguingly, the signal at 350 kDa is enhanced upon depletion of Sec62p, which would be consistent with our hypothesis that this species represents a complex related to SEC but lacking the Sec62p component. This was confirmed upon depletion of Sec63p, where we found that both the 350- and 380-kDa Sec61-containing complexes were now absent but that the 140 and 280-kDa species were unaffected (Fig. 6B). These results demonstrate that Sec63p is required for the assembly of Sec61p into both the SEC and SEC' complexes.

The Brl Domain in Sec63p Is Required for Complex Formation—To determine whether the Brl domain is required for the assembly of the Sec63p-containing SEC and SEC' complexes, we next analyzed protein complexes from membranes prepared from BYY5 cells carrying either pAJ7 ({Delta}550–611), pRS316 (vector control), or pJKR2 (wild type SEC63). As expected, membranes derived from BYY5 + pJKR2 exhibited the wild type pattern of translocon complexes (Fig. 7A, upper panel, lane 2). However, in those derived from both BYY5 + pRS316 (vector control) and BYY5 + pAJ7 ({Delta}550–611), both the SEC and SEC' complexes are absent, whereas the 140- and 280-kDa Sec61p complexes remain unaffected (upper panel, lanes 1 and 3). SDS-PAGE and Western analysis of the same microsomes confirmed repression of wild type SEC63 and expression of {Delta}550–611 (lower panels). The absence of both the SEC and SEC' complexes in {Delta}550–611p-containing microsomes correlates with complete defects in both translocation pathways.

This effect might be due to a general perturbation in the cytosolic domain of Sec63p rather than any specific role for the Brl domain in SEC' assembly. In order to test this, we next examined translocon complexes present in Sec63-{Delta}28p membranes. Two major Sec61-containing complexes were identified, the smaller corresponding to the 140-kDa complex and the larger migrating slightly faster than SEC' (Fig. 7B). The larger complex also contained Sec63p (Fig. 7B) plus all other known components of the SEC' complex (data not shown). Complex migration in BN-PAGE is known to be affected by charged domains, so the faster migration of SEC' in this case may be due solely to the absence of the highly charged COOH-terminal region of Sec63p. A similar increase in migration can also be seen for the Sec63p-{Delta}28p-Sec71p-Sec72p complex (Fig. 7B). Of course, we cannot exclude the possibility that the faster migration of these complexes might be due to the loss of some unknown component.

Sec63-{Delta}28p membranes are specifically defective in post-translational translocation. Consistent with this, we found no detectable SEC complex, indicating that the COOH-terminal 28 residues of Sec63p are in fact essential for recruitment of Sec62p. Our results further demonstrate that the Sec63p Brl domain is required for formation of higher order protein translocation complexes identified in the yeast ER membrane.

The J-domain of Sec63p Is Required for Function of the SEC and SEC' Complexes—The absence of the SEC and SEC' complexes in the mutants analyzed thus far might be an artifact of the concomitant defect in protein translocation in these cells. In this scenario, complex formation would be dependent upon ongoing co-translational translocation and not vice versa. In order to examine this possibility, we screened existing mutants to identify any that might remain proficient in complex assembly despite a block in translocation. We have previously reported a derivative of Sec63p in which the majority of the luminal J-domain is deleted (sec63-{Delta}J), which results in the abolition of both translocation pathways both in vivo and in vitro (12). BN-PAGE analysis of membranes prepared from BYY5 cells containing pAJ8 (sec63-{Delta}J) revealed four Sec61-containing complexes that were indistinguishable in gel mobility from those observed in control cells (Fig. 7C). These results indicate that formation of the SEC and SEC' complexes does not require ongoing protein translocation. Moreover, we can further conclude that the role of the Sec63p J-domain in protein translocation must only occur downstream of complex assembly.


Figure 6
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  		FIGURE 6.
Sec63p is required for assembly of both SEC and SEC'. A, microsomes were prepared from wild-type W303{alpha} (WT) and MWY50 (PMET3-SEC62) after 7-h incubation in YPD. The microsomes were solubilized as described under "Experimental Procedures" and resolved by 6–12% BN-PAGE (upper panels) or 10% SDS-PAGE (lower panels) prior to analsis by Western blotting for Sec61p, Sec62p, and Sec63p as indicated. B, as in A but with microsomes from wild-type and BYY5 (PMET3-SEC63).

 

   DISCUSSION
TOP
 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS
 DISCUSSION
REFERENCES
 
Despite a number of recent structural studies of specific translocon components, a clear view has yet to emerge regarding the nature of the functional translocon. The highest resolution model to date of the archaebacterial SecY complex has led to the suggestion that the protein-conducting channel might be formed by a single SecY trimer (23). However, numerous other studies have demonstrated that the homologous eubacterial and eukaryotic translocon complexes form much larger oligomeric structures. EM models show eukaryotic complexes with an average outer diameter of 95 Å and a size of between 250 and 280 kDa (24). This led to the suggestion that the translocon might comprise three or four copies of the Sec61 complex, an observation supported by cryo-EM studies of the ribosome-associated yeast translocon (25, 27). EM models of the bacterial translocon have shown a dimeric SecYEG complex associated with the ribosome (36, 37). The variation in complex size identified in these various studies means that the true oligomeric nature of the core-translocon complex in vivo is still unclear. In addition, the biophysical modeling methods are based solely upon the trimeric Sec61p complex or its homologues, and therefore the various associated factors that interact with Sec61p complexes during protein translocation are not accounted for.


Figure 7
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  		FIGURE 7.
SEC and SEC' formation requires the Brl-domain but not the J-domain of Sec63p. A, microsomes were prepared from BYY5 + pRS316 (vector control, lane 1), +pJKR2 (SEC63, lane 2), and + pAJ7 (sec63-{Delta}550-611, lane 3) after 7 h of growth in YPD. Microsomes were prepared as described and resolved by 6–12% BN-PAGE (upper panels) and analyzed by Western blotting using antibodies against Sec61p. The same microsome samples were resolved on 10% SDS-PAGE (lower panels) and analyzed by Western blotting for Sec61p and Sec63p. B, microsomes were prepared from BYY4 (SEC63, lanes 1 and 3) and BYY8 (sec63-{Delta}28, lanes 2 and 4) after 7 h of growth in YPD. Microsomes were prepared as described and resolved by 6–16% BN-PAGE and analyzed by Western blotting for Sec61p and Sec63p. C, microsomes were prepared from BYY5 + pJKR2 (SEC63, lane 1) and BYY5 + pAJ8 (sec63-{Delta}J, lane 2) after 7 h of growth in YPD. Microsomes were prepared as described and resolved by 6–12% BN-PAGE (upper panel) or 10% SDS-PAGE (lower panels). The BN-PAGE blot was probed with antibodies against Sec61p, whereas the two SDS-PAGE Western blots were probed with antibodies against either Sec61p or Sec63p as indicated.

 
Blue Native PAGE has been used to visualize both the mammalian Sec61-complex and bacterial SecYEG (29, 31). In this study, we have identified four distinct Sec61-containing complexes derived from yeast ER membranes. The two smaller complexes, 140 and 280 kDa, are strikingly similar to the 140-kDa complex identified in mammalian ER (34) and to the 130- and 270-kDa bacterial complexes identified as oligomers of the conserved SecYEG complex (29). The molecular masses of Sec61p (53 kDa), Sss1p (8.9 kDa), and Sbh1p (8.7 kDa) would predict a molecular mass for the heterotrimer of 70.6 kDa. Thus, the observed gel mobilities of 140 and 280 kDa are remarkably consistent with those predicted for a dimer and tetramer of the Sec61 complex. Of course, we cannot exclude the possibility that some other factor(s) might be present in one or more of the complexes detected in our analysis.

In addition, we found two larger Sec61p-containing complexes migrating at 350 and 380 kDa, respectively. The largest of these corresponds to the previously defined heptameric SEC complex known to be required for post-translational translocation (7). The 350-kDa species is a newly defined SEC' complex containing all of the components of the SEC complex apart from Sec62p.

In cells depleted of Sec62p, only the SEC complex was lost, with a concomitant block in post-translational translocation. However, upon repression of SEC63, both the SEC and SEC' complexes were absent, and both translocation pathways were defective. Significantly, the 140- and 280-kDa Sec61-containing complexes remained abundant after Sec63p depletion, from which we must conclude that neither of these smaller complexes is sufficient for translocation. Thus, whereas the SEC complex is required for Sec62p-dependent translocation, SEC' is required for SRP-dependent translocation. The pools of 140/280-kDa Sec61 complex and Sec63-Sec71-Sec72 complex observed in wild type membranes might derive merely from unstable SEC' or might correspond to bona fide intermediates of a translocon reaction cycle.

It has previously been reported that mammalian Sec61 complex plus SR was sufficient for co-translational translocation into reconstituted proteoliposomes (38). However, Sec63p is essential for co-translational translocation into intact yeast membranes in a manner that, importantly, is independent of the post-translational pathway (11, 12). This apparent anomaly might be explained were Sec63p to play a regulatory role, say in translocon gating, that is essential in intact membranes but not in artificial proteoliposomes. However, given the subsequent discovery that mammalian Sec63 co-purifies with Sec61 complex (17), it would be interesting to determine whether some catalytic level of Sec63 might be present in the proteoliposome system.

The presence of Sec71p and Sec72p in the co-translational SEC' complex is interesting, given that neither is essential for this process. However, both of these components were first identified in a genetic screen for mutants defective in the integration of an SRP-dependent membrane protein (39). From this we must conclude that mutations in both SEC71 and SEC72 confer phenotypically significant defects in this pathway. Our data clearly demonstrate that the higher order SEC and SEC' complexes provide the context in which Sec63p functions during protein translocation. Interestingly, it has recently been shown that residues within the acidic domain of Sec63p are phosphorylated and that this contributes to Sec62p binding. It has been suggested that this might provide a mechanism to regulate Sec62p binding and may therefore influence the relative levels of SEC and SEC' complexes present within the ER membrane (40).

It seems likely that the translocation channel would be tightly regulated in order to maintain the permeability barrier of the ER membrane. Indeed, a number of studies on the mammalian translocation machinery have demonstrated that the Kar2p homologue BiP is required to gate the luminal face of the translocon (13, 14). More recently it has been demonstrated that BiP-mediated gating requires a membranous J-component that interacts with BiP at two points during the gating cycle (15). First, ADP-bound BiP requires a J-domain to be present to enable binding to the luminal face of the translocon. Subsequent to binding, a J-mediated stimulation of nucleotide exchange and hydrolysis recycles BiP from the translocon, leaving the channel open. The SEC/SEC' complexes would provide a context in which the J-domain of Sec63p could recruit Kar2p to the luminal face of the active translocon in order to regulate the opening and closing of the channel. Similar complexes may prove to exist in mammalian cells; indeed, homologues of both Sec63p and Sec62p have been identified and found in association with purified Sec61{alpha} (16, 17), but no specific function has yet been ascribed to these proteins in the mammalian cells. There is also a second membrane-associated J-protein in the mammalian ER, Mtj1, that has been shown to interact with both the ribosome and BiP (41), raising the possibility that there might be some functional redundancy in the mammalian system.

Our results clearly demonstrate that the cytosolic domain of Sec63p plays two distinct roles in translocon assembly. The Brl domain is required for the formation of the SEC' complex, and the acidic domain is then required for recruitment of Sec62p to form the larger SEC complex. The Brl domain is so-called due to its homology to two regions of the yeast U5 200-kDa RNA helicase Brr2p (bad response to refrigeration), a component of the yeast spliceosome (20, 21). The two "Brl regions" in Brr2p have been shown to interact with a number of different spliceosomal components during the dynamic structural rearrangements that occur within the spliceosome during the course of a splicing reaction (22). Our evidence is consistent with the Brl domain within Sec63p acting as a protein-binding domain during complex assembly. It is then interesting to speculate that, as in the spliceosome, it might also provide a mechanism for structural remodeling events within the translocon during this complex reaction process. It will be interesting to determine which factors interact with the Brl domain and whether these interactions change during the course of a translocation reaction.


   FOOTNOTES
 
* The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact. Back

1 Supported by studentships from the Biotechnology and Biological Sciences Research Council. Back

2 Supported by a grant from the Wellcome Trust. Back

3 To whom correspondence should be addressed. Tel.: 44-161-275-5104; Fax: 44-161-275-5082; E-mail: colin.stirling{at}manchester.ac.uk.

4 The abbreviations used are: ER, endoplasmic reticulum; SRP, signal recognition particle; SR, SRP cognate membrane receptor; BN-PAGE, blue native PAGE; Bistris, 2-[bis(2-hydroxyethyl)amino]-2-(hydroxymethyl)propane-1,3-diol. Back


   ACKNOWLEDGMENTS
 
We thank Mailys Vergnolle for assistance with BN-PAGE and Martin Pool for critical reading of the manuscript.



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 ABSTRACT
 INTRODUCTION
 EXPERIMENTAL PROCEDURES
 RESULTS
 DISCUSSION
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J. A. Dalley, A. Selkirk, and M. R. Pool
Access to Ribosomal Protein Rpl25p by the Signal Recognition Particle Is Required for Efficient Cotranslational Translocation
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