The C-terminal subunit of artificially truncated human cathepsin B mediates its nuclear targeting and contributes to cell viability
Splicing variants of human cathepsinB primary transcripts (CB(-2,3)) result in an expression product product which lacks the signal peptide and parts of the propeptide. This naturally truncated Δ51CB is thus unable to follow the regular CB processing and sorting pathway. It is addressed to the mitochondria through an activated N-terminal mitochondrial targeting signal instead. Although Δ51CB is supposed to be devoid of the typical CB enzymatic activity, it might play a role in malignancies and trigger cell death/apoptosis independent from the function of the regular enzyme. Cytoplasmic presence of the mature CB might occur as a result of lysosomal damage.
We investigated such "aberrant" proteins by artificial CB-GFP chimeras covering various sequence parts in respect to their enzymatic activity, their localization in different cell types, and the effects on the cell viability. Unlike the entire full length CB form, the artificial single chain form was not processed and did not reveal typical enzymatic CB activity during transient overexpression in large cell lung carcinoma cells. Δ51CB was found predominantly in mitochondria. In contrast, the shorter artificial CB constructs localized in the cytoplasm, inside the cell nucleus, and in the midbodies of dividing cells. Bleaching experiments revealed both mobile and immobile fractions of these constructs in the nucleus. Nuclear accumulation of artificially truncated CB variants led to disintegration of nuclei, followed by cell death.
We propose that cell death associated with CB is not necessarily triggered by its regular enzymatic activity but alternatively by a yet unknown activity profile of truncated CB. Cytoplasmic CB might be able to enter the cell nucleus. According to a mutational analysis, the part of CB that mediates its nuclear import is a signal patch within its heavy chain domain. The results suggest that besides the N-terminal signal peptide also other CB domains contain patterns which are responsible for a differentiated targeting of the molecule, e.g. to the mitochondria, to the nucleus, or to vesicles. We propose a hierarchy of targeting signals depending on their strength and availability. This implies other possible transport mechanisms besides the usual trafficking via the mannose-6-℗ pathway.
KeywordsFluorescence Resonance Energy Transfer Fluorescence Recovery After Photobleaching Nuclear Target Cardinal Process Mitochondrial Target Signal
List of abbreviations
- 4Mβ NA
Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
full length message
enhanced cyan/green/yellow fluorescent protein
fluorescence recovery after photobleaching
fluorescence resonance energy transfer
mitochondrial targeting signal
nuclear localization signal
one-photon laser scanning microscopy
region of interest
transcription initiation factor 1A
two-photon laser scanning microscopy
digital widefield microscopy
Lysosomal cysteine peptidases play an important part in intra- and extracellular protein degradation. Their primarily assumed function has changed: they "can no longer be considered as simple garbage disposers" , but do also function as key enzymes in cardinal processes of homeostasis and cell demise. This is particularly valid for the ubiquitous peptidase cathepsinB (CB, E.C.188.8.131.52). In higher organisms, this enzyme is present and active in almost all tissue types. For a long time it was therefore considered as an unspecifically degrading peptidase. Research of recent years has brought up specificity  and its implication in pathologic processes as arthritis  or cancer [4, 5, 6]. Furthermore, these investigations have revealed the pivotal role of CB in a number of apoptotic pathways [7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18].
A number of mRNA variants may be generated by gene splicing (exon skipping) (Fig 1A, centre panel). The regulation of the splicing process remains unclear. All splicing variants might be expressed concomitantly . They can be subdivided into two subpopulations which result in two distinct translation products [19, 20, 23, 24]. The first species lacks exon2 (CB(-2)), which does not affect translated regions of the entire CB and appears to be a more easily transcribed message . The second one lacks exons2 and 3 (CB(-2,3)). As a result of an additional initiation codon at position 53 within exon4, this message can give rise to the naturally truncated translation product Δ51CB (the original term from the literature is used here). Recent publications prove that Δ51CB has no regular CB enzymatic activity [25, 26]. Such truncations are not exceptional among cysteine peptidases. Recently, there have been discovered other truncated cathepsins like a cathepsinH progeny lacking parts of the signal peptide with unknown functions and differentiated intracellular distribution  and a truncated form of cathepsinL devoid of the signal peptide with nuclear targeting and a specific cleaving activity . According to present knowledge and interpretations, the truncated message of CB is linked to pathological findings, in so far as the respective expression product was found more prominently expressed in tumours  or arthritic tissues/cells . However, it is not clear whether it promotes malignancies or is a means of defence.
Although the detection of CB outside the lysosomes was primarily considered atypical, its extracellular and plasma membrane associated appearance is now well documented [4, 29]. Release of functional CB from lysosomes is connected with apoptosis [13, 18]. It is uncertain, whether this can be attributed to a particular fraction of the enzyme.
Earlier on, CB was also found to be associated with the nucleus by immuno- and enzyme cytochemistry [30, 31] and by biochemical methods [16, 32, 33]. The truncated Δ51CB was identified in association with the cytoplasmic side of the nuclear envelope . Nuclear fractions of CB could be linked with cell death [7, 12, 14, 33, 34]. It remains unclear, whether they represent the mature CB released from the lysosomes or the truncated Δ51CB. However, detection methods based on polyclonal antibodies do not discriminate between different variants of CB, just as little as biochemical assays of cellular organelles do between inside and attached (outside) activity. Therefore, the results mentioned above should be considered with care. Both constraints can be overcome by living cell microscopy of genetically labelled samples. Δ51CB tagged by GFP appears accumulated in mitochondria; its overexpression provokes nuclear fragmentation and cell death . Mitochondrial localization is not surprising since the first 20 amino acids of the residual proregion contain a mitochondrial targeting signal (MTS) . These results point out a specific role of Δ51CB in cell death pathways besides those, for which the lysosome-released canonical forms of the peptidase might be responsible.
The aim of our studies was to characterize cytoplasmic CB forms lacking the ER signal peptide within living cells. Basically, there are two situations in which cytoplasmic CB can occur in vivo: (i) as a mature message product resulting from lysosomal leakage [37, 38, 39, 40] and (ii) as naturally truncated Δ51CB resulting from alternative splicing [19, 23, 24, 25, 36]. We investigated the intracellular transport of various recombinant artificial CB forms in living cells by GFP labelling and by spectroscopic methods. Living cell fluorescence microscopy now offers a wide range of techniques to collect information about cellular processes and will surpass indirect labelling and studies on fixed material. Our findings support a nuclear targeting of CB produced from incomplete messages and they hence partly go together with the data mentioned before [24, 25, 36]. We could further elucidate the nuclear transport and the stability of nuclear binding by mutational analysis and light microscopy. Finally, we found a link to cell death for the truncated polypeptides synthetically generated from incomplete messages.
Posttranslational cleavage and enzymatic activity
Artificially truncated CB constructs such as Δ72CB or the single chain form of CB, CB(SC), were obtained from an established human cDNA full-length message (FLM) by PCR, cloned into a eukaryotic expression vector, and tagged by distinct fluorescent protein (FP) variants. These genetic chimeras were then used for mutational analysis, localization, mobility, and functional studies.
Light and heavy chain (LC and HC) are linked by two residues, which are removed in vivo during the zymogene processing. Δ72CB resulted from an internal Kpn I-site upstream the CB(SC) sequence and revealed a fluorescent expression product in cells implying a regular in-frame translation. The expected alternative translation origin lies seven residues before the first codon of CB(SC) at the M73 position. The polypeptide that would result from this message lacks the complete signal peptide and that part of the N-terminal proregion which encodes the MTS. It is the most similar in size to the 21 amino acids longer native Δ51CB encoded by the CB(-2,3) transcript  in respect to all the other constructs used.
Neither Δ72CB-EGFP nor CB(SC)-EGFP was posttranslationally cleaved in LCLC-103H cells during their transient expression as specified by SDS-PAGE and Western Blot analysis (Fig 1B). In addition, only a small fraction of the C-terminal fluorescent protein tag appeared to be cleaved off confirming the high stability of the constructs, which was important for the further studies. Both had similar apparent molecular masses of ~62 kDa. The native CB revealed a typical banding pattern primarily representing the single and the heavy chain forms. The amount of native CB remained unaffected by the transient overexpression of the recombinant products.
Both in vivo and in vitro studies did not reveal any CB specific enzymatic activity during transient overexpression of CB(SC) variants. In contrast, permanently expressed CB(FLM)-FP was properly processed and exhibited significantly elevated levels of enzymatic activity: In LCLC-103H-cells we measured 250 μ EU/(μ g protein). The cell clone with the highest CB(FLM)-FP expression revealed 2570 μ EU/(μ g protein). Nuclei were isolated from this cell clone and non-transfected control cells. We found 1150 and 8.4 μ EU/(μ g protein), respectively. Microscopy revealed that this activity is located in the nuclear envelope.
Naturally truncated Δ51CB
Intracellular localization of the single chain form
A number of established cell lines and freshly isolated endothelial cells were transfected with the chimeric single chain form CB(SC)-EGFP. The transient expression was analysed by fluorescence microscopy the following days. Pure EGFP, which lacks any targeting sequences, was used as control. In all cases, the artificially truncated CB without its signal peptide localized significantly different from the entire CB(FLM)-EGFP construct and Δ51CB.
Transient transfection of other cell lines than LCLC-103H resulted in similar localization of CB(SC)
HeLa cells and Hep-G2 hepatocytes produced higher numbers of perinuclear granules. Wi-38 fibroblasts showed vesicular structures even in peripheral regions of the cells (pseudopodia), but lower accumulations in the nuclei. The fluorescence distribution was strongly associated with the nucleus in MDCK cells. The localization in the COS-7 cells was more homogeneous in the cytoplasm with no particular accumulations and only low signals in the nucleus. Primary endothelial HDMEC contained intensive, punctual signals in the cytoplasm; nuclei were not involved. Hence, with the exception of HDMEC cells all cell types investigated revealed no principle qualitative differences. The absence of nuclear fluorescence in the primary endothelial cells might depend on a retarded or dysfunctional transport mechanism.
The nuclear accumulation of the CB(SC)-EGFP polypeptide, which is consistent for different cell types from various species, suggests the presence of a nuclear targeting mechanism. We did not find any common nuclear localization signal (NLS) within the CB sequence by appropriate computational analysis (PSORT v6.4, © K. NAKAI, University of Tokyo, Japan). In case of a signal patch, the abundance of nuclear targeting would ask for a specific folding of the polypeptide exposing the patch on its surface. The conformation of the CB(SC)-EGFP polypeptide is difficult to predict. In contrast to CB(FLM)-EGFP, which is folded cotranslationally within the ER, it must be determined by the conditions prevailing in the cytoplasm. To exclude a possible impact of the fluorescent protein sequence on the localization and to prove the integrity of the single chain form (in case of degradation or processing, respectively), further constructs were produced: (i) FP-CB(SC)-FP is flanked by two distinct FPs, (ii) myc-CB(SC)-FP includes a N-terminal myc-Ab epitope (EQKLISEEDL), and (iii) myc-CB(SC) contains this N-terminal myc tag only. FP-CB(SC)-FP showed the same distribution as the single-tagged construct in both fluorescence channels (Fig 4C, D). Application of α-myc and α-GFP Abs in immunocytochemical experiments to fixed LCLC-103H cells verified a strong colocalization of both signals. The product of myc-CB(SC) colocalized with CB(SC)-EGFP in the nucleus, in cytoplasmic granules, as well as in the midbody (Fig 4E, F). The dual-marker-construct myc-CB(SC)-EGFP revealed the same signal overlap. These results suggest that in most cases (i) neither the type (ii) nor the size of the tag (iii) nor the tagging site do exhibit significant impact onto the structure and the localization of CB(SC). In addition, (iv) degradation or processing of the CB single chain form into light and heavy chains under transient expression conditions is unlikely. This was already exposed by the Western Blot analysis (Fig 1B).
Nuclear binding studies
The mobility of GFP-tagged CB(SC) was studied by in vivo photobleaching experiments. Two-photon laser scanning microscopy (TPM) was applied to register loss of fluorescence through continuous irradiation or fluorescence recovery after photobleaching (FRAP), respectively. TPM confers less damage to the fluorochrome as well as to cells and thus prolongs the effective observation time. For comparative purposes, EGFP and two EGFP chimeras – the ribosomal transcription initiation factor TIF1A and the histone H2A – were taken as controls. Their diffusion and binding characteristics can be deduced from their known localization and functional properties. All controls appear in the nucleus to some extent and represent different types of nuclear binding: EGFP is known to have no binding capacity and to diffuse freely . The transcription factor has a mobile (nucleoplasm) and an immobile (nucleoli) fraction. Histones are tightly bound in the nucleus . Constitutively (H2A-EGFP) or transiently (other constructs) expressing LCLC-103H cells were examined. The obtained serial scans were evaluated in respect to their mean grey values by automated image processing routines.
The recovery of fluorescence after complete photobleaching within a ROI of the sample was analysed in analogy to the continuous bleaching experiment (Fig 5C). Back diffusion of fluorochrome into the bleached region was monitored continuously. Minor differences in the starting points are inherent to the procedure. The recovery of both EGFP and TIF1A-EGFP intensity was complete within milliseconds. Whereas only mobile EGFP was observed, there was a very small fraction (~3%) of immobile TIF1A-EGFP as indicated by its lower plateau. In contrast, the fluorescence of the tightly bound histone-EGFP chimera did hardly recover and revealed an immobile fraction comprising at least 60% of the material. Again, both CB(SC) variants showed an intermediate behaviour in respect to the controls which confirmed the notion of their binding to nuclear components. The immobile fractions were low and diffusion occurred retarded in both cases. In spite of the higher molecular mass, the double-tagged CB(SC) diffused faster than the single tagged variant. This can be explained by conformational changes in the CB protein caused by the additional N-terminal fluorescent protein, which might affect affinity characteristics. Furthermore, one has to consider the different bleaching characteristics of EGFP (~8% of original intensity) and ECFP/EYFP (~30% of original intensity), which could distort the results.
A construct encoding the natural Δ51CB (#0) localized to mitochondria and nuclei. Two constructs originate from the sequence inherent restriction sites: A Kpn I deletion led to (i) a seven residues longer construct in respect to the CB(SC) (#3, 4) and contained parts of the N-terminal propeptide (Δ72CB, #1, 2). (ii) The Bgl II-generated mutant CB([C211_I243del]SC) (#8) lacked 33 residues, which contain a possible disulfide bridge. In the intact polypeptide, this sequence connects the two globular units of the heavy chain. Both mutants localized in cells exactly as CB(SC). The deletion of the 6 residues long C-terminal propeptide in Δ72CB (compare #1 and #2) did not exhibit any influence onto the signal distribution. This corresponds to other observations . As constructs containing or lacking the C-terminal propeptide localized identically, we conclude that the chimeras were not processed at this site and that these results are reliable.
In the absence of a canonical NLS, one might suppose that conformation plays the essential part for the localization of artificially truncated CB. Our efforts were therefore concentrated on globular protein domains the destruction or deletion of which should less affect the folding of the remaining polypeptide. Two GFP-tagged constructs, which correspond to the heavy and the light chain of CB, were produced. While both CB(LC) constructs (#9, 10) revealed a diffuse distribution in LCLC-103H cells comparable to that of pure EGFP, the single-tagged CB(HC) construct (#11) was distributed identically to CB(SC) in the cytoplasm, the nucleoplasm, the granules, and the midbody. This leads to the assumption that the nuclear localization patch really exists and that it is confined within the heavy chain. Double-tagged constructs led to a less differentiated signal distribution in some cases (e.g. #12, 16).
Consequently, the CB(HCC') sequence was reduced equidistantly towards its C-terminus and the following constructs were obtained: CB(HCC'1) (E242_D333; #17), CB(HCC'2) (V255_D333; #18), CB(HCC'3) (Q268_D333; #19), CB(HCC'4) (R281_D333; #20). With lower fragment size, the constructs were located more and more homogeneously within the cytoplasm and the nucleus, the typical granules no longer appeared and fewer signals were enriched in the midbody. Finally, the only 52 residues long CB(HCC'4) fragment appeared almost as diffuse as EGFP.
The exposed and highly mobile residue E273, which is located within the restricted region, raised the question whether it is possibly involved in the nuclear localization of CB. We proved this suspicion by specific point mutations: In CB([E273L]SC) (#21), the acidic and polar glutamic acid is exchanged against the neutral and non-polar leucine; in CB([E273del]SC) (#22), the glutamic acid is eliminated. Finally, in CB([Q268_G277del]SC) (#23), the surrounding residues forming a loop are deleted completely. Surprisingly, neither the point mutation nor the point deletion nor the excision of the five residues to each side of E273 produced a significant change in the localization. In contrast, the elimination of the adjacent C-terminal region in CB([L80_L283]SC) (#24) resulted in a considerable decrease of nuclear signal.
These mutational studies suggest that a region within the C-terminal sequence N228_D333 has a great impact on the nuclear localization of CB(SC). The results favour the assumption that an epitope is generated by a spatial arrangement of the respective, yet not defined residues.
Mechanisms of nuclear import
Besides an active import of the CB(SC) polypeptide into the nucleus, a passive transport by diffusion processes combined with retention of the molecule inside the nucleus and caused by affinity to nuclear components, has to be considered. In general, proteins larger than 60 kDa cannot pass the nuclear envelope by mere diffusion. To exclude the possibility of passive diffusion, we used a double-tagged construct (FP-CB(SC)-FP; #5) such increasing the size to 84 kDa, which is well above the exclusion limit.
In spite of their increased size, the double-tagged constructs revealed a nuclear localization comparable to that of their single-tagged analogues (Fig 4C, D). Because of the close neighbourhood of both fluorochromes, fluorescence resonance energy transfer (FRET) is possible when appropriate fluorochromes are used. Indeed, using the combination ECFP-EYFP a FRET effect was observed. As the donor molecule is never completely extinguished, the transfer appears to be incomplete, which is not unusual under the given experimental conditions . FRET would become unlikely if the heavy and the light chain of CB(SC) were segregated by processing or general proteolysis. Therefore, the FRET experiment is a further proof that the single chain form keeps intact and that the entire fusion protein is transported into the nucleus.
We conclude that the underlying mechanism depends on an active transport. Further, these results clearly point out a directed nuclear transport and retention mechanism linked to the structure of the CB(SC) polypeptide. In advanced expression states, punctuate signals were observed, which were carried from the tips of the pseudopodia towards the Golgi area in a directed way and which penetrated the nuclear membrane without a noticeable delay [see Additional file 1].
Induction of cell death
We quantified cell death by propidium iodide staining and fax analysis 16 h post transfection and determined mortality rates for populations transfected with EGFP, CB(FLM)-EGFP, and CB(SC)-EGFP (Fig 9B). The mortality rate of mock-transfected cell populations was below 20%. Cells expressing the EGFP control only revealed mortality rates of ~18%. On the contrary, ~43% of the CB(FLM)-EGFP expressing cells and ~78% of the cells transfected with CB(SC)-EGFP died at that time. The latter population did not recover in the further time course and only a few cells with a very low expression level or aberrant localization survived.
Indications for apoptosis were proved. In some cases, nuclear fragmentation and membrane blebbing were observed. A well-defined evidence of apoptosis in respect to disintegration of the plasma membrane (Annexin V/propidium iodide assay) or DNA fragmentation (DNA ladder) could not be produced. Nevertheless, one should not exclude apoptosis in favour of necrosis from further considerations.
Over the last years, the perception about the functions of CB has changed considerably. Recently found evidences assign to this 'lysosomal peptidase' key positions in cardinal processes also outside the lysosomes, like in apoptosis or cancer. Technical advances in microscopy and the development of stable chemical and genetic markers for organelles and molecules now facilitate powerful and direct in vivo approaches. They permit not only the localization of certain proteins but also the investigation of their intracellular transport, their interaction with other proteins, and their enzymatic activities, as well as the study of the cellular response in respect to overexpression or silencing of specific proteins.
In vivo, both normal tissues and especially tumours contain a population of truncated CB, which can be traced to alternative splicing (Fig 1A). Since expression and transport of CB are frequently altered in transformed and malignant cells as well as in cells undergoing apoptotic processes, we gave our attention to the investigation of such CB aberrations. For this purpose, we have labelled several recombinant CB forms by fluorescent proteins and subjected them to living cell imaging by advanced digital microscopy techniques.
Truncated cathepsin B forms
The naturally truncated Δ51CB lacks the complete signal sequence as well as parts of the N-terminal proregion. This product is barred from entering the ER, and thus from further processing and transport by the mannose-6-℗ pathway. However, the residual propeptide contains a MTS which becomes efficient and directs the predominant amount of the respective product to mitochondria . Our own observations confirm this finding. Δ51CB is expressed both in vitro and in vivo as entire 35 kDa product . This corresponds to our findings of further truncated artificial CB sequences irrespective of their size or tagging with markers: all constructs remained intact and they were not cleaved posttranslationally. Earlier assumptions  about the possible CB-specific enzymatic activity of Δ51CB were recently questioned [25, 26].
Obviously, the propeptide is indispensable for proper in vivo-folding of the mature enzyme with the typical CB activity. Interestingly, a splicing variant of cathepsin L devoid of the signal peptide also appears associated with the nucleus and exhibits a specific cleavage activity . Therefore, one should take into consideration that the truncated form(s) of CB might have cleaving characteristics, which do not become evident in the standard assays. In this report, we prove that neither the completeness of the sequence nor the CB specific enzymatic activity is relevant to the observed nuclear accumulation and induction of cell death.
Unlike CB(FLM), which is targeted to the lysosomes via ER and Golgi and partly secreted into the extracellular medium, the cytosol-expressed Δ51CB is mainly addressed to the mitochondria . Our own experiments with the same construct confirm these findings. However, deduced from our measurements, a non-negligible fraction of the expression product can also be found in the nucleoplasm. Inspection of the published data  does not contradict our findings. Nuclear fluorescence cannot arise from unspecific decay or cleavage products inasmuch as double-tagged constructs reveal similar results as the single-tagged ones indicating the integrity of the constructs. Further, we propose a targeting signal downstream of the MTS which alternatively may direct CB and derivatives thereof into the nucleus. Obviously, a hierarchy of signals encoded within the CB polypeptide determines its intracellular distribution pattern. The signal peptide and the glycosylation sites are decisive for lysosomal targeting of the FLM-product. The signal peptide and the propeptide containing the MTS are removed during the maturation process. Thus, the nuclear targeting signal might become active after release of the enzyme from lysosomes into the cytosol. In case of the truncated Δ51CB, the MTS is predominant, whereas for the artificially truncated CB forms the nuclear targeting signal is characteristic. In the past, CB was also found in cell nuclei of tumour cells and normal tissues [31, 44, 45], but until now there are almost no indications to a potential transport mechanism or a specific function. Especially in apoptotic processes, CB and other CB-like peptidases were detected also in the cell nucleus [8, 32]. However, these studies still miss a thorough scrutiny for the nuclear localization.
Here, artificially truncated CB-GFP chimaeras were used, from which the Δ72CB-construct came closest to the splicing variant Δ51CB in respect to its size. However, it was devoid of the functional sequence present in Δ51CB that encodes the N-terminal MTS. Not only Δ72CB but also the slightly shorter CB(SC) and other considerably shorter CB fragments were first expressed cytoplasmically as expected. In the sequel, they were enriched within granular structures, which were not consistent with lysosomes or mitochondria as might be supposed. Furthermore, these polypeptides were clearly proved in the nucleoplasm of several cell types. Frequently, nucleoli showed discrete regions of labelling. In contrast to the nucleus, which can be entered by both active and passive transport, the nucleoli are addressed exclusively by interaction with nucleolar building blocks . Immunocytochemistry of CB(SC), which was tagged by a myc-epitope, confirms the results of the GFP-tagging. Though, a slightly higher reticular signal distribution was observed. In addition, this proves that in spite of its size, the fluorescent protein does not sufficiently affect the affinity of CB polypeptides to the respective localization sites.
Based on these results, the capacity of cathepsins particularly in the context of nuclear localization has to be reconsidered .
There are no clues to an already known NLS in CB according to literature and to our own computational analysis. The findings suggest that the complex differential distribution of artificially truncated CB might depend on distinct targeting signals. To identify the region(s) of a potential nuclear localization signal sequence or a signal patch, respectively, a number of mutated GFP-tagged constructs were produced. Despite the elimination of extensive sequence regions, partly including potential stabilizing elements such as disulfide bridges – e.g. in CB([C211_I243del]SC) –, the specific localization persisted to a high degree. The participation of the CB light chain in this sorting procedure was excluded. The heavy chain determines the nuclear localization only; the region with the highest impact on the specific localization could be narrowed down to its C-terminal subunit. Although constructs smaller than CB(C'1) did not reveal unequivocal results, the smallest of them, CB(C'4), was not targeted specifically. The assumption that the nuclear affinity essentially depends on the prominent acidic and polar surface residue E273, which is found within the relevant region, could not be proved by several specific mutations. Excision of the differential part of CB(C'3) and CB(C'4) did also not affect the localization. The deletion did not imply adjacent residues around the active site H278 in CB(C'4), which also might be important. Hence, the results do not support the existence of a linear signal sequence. Rather a composed signal patch is likely, which evolves from the three-dimensional conformation of the polypeptide. In contrast to linear signals, such signal patches are difficult to identify exactly.
The appearance of CB(SC) and other artificially truncated constructs in the midbody is striking (Fig 4C–G). According to a recent study , midbodies have a complex composition. However, only a few peptidases and no cysteine peptidases at all were found therein. Nevertheless, the association of CB constructs with the midbody supports their nuclear occurrence.
Transport mechanisms and interaction with the nuclear matrix
The exclusion limit for free diffusing molecules through the nuclear pores is at ~60 kDa. By applying constructs well above the exclusion limit (~84 kDa) we ruled out passive transport across the nuclear pore complex with high probability. The integrity of the products was proved by immunoblotting and by FRET analysis. In the time-lapse experiments, we noticed a directional transport of granules from across the cells to the Golgi and into the nucleus without any delay at the nuclear envelope. These observations ask for a specific transport system to which the expression product might be hooked into.
Are the imported artificial CB variants possibly retained inside the nucleus because of a specific affinity to nuclear components? To answer this question, a comparative TPM-photobleaching approach was applied. The mobility of CB(SC)-EGFP and ECFP-CB(SC)-EYFP was analysed in living cells by continuous photobleaching and FRAP. We chose the freely diffusing EGFP  and the tightly chromatin-bound H2A-EGFP  as limiting controls and TIF1A-EGFP as further control with partial mobile and immobile fractions. In both technical variants of the approach, the EGFP measurements obeyed curve shapes characteristic of free diffusion (almost exclusively mobile fraction); in contrast, those of H2A-EGFP were typical for predominantly immobile molecules. Hence, both controls reacted as to be expected and in analogy to former studies [49, 50]. The courses of the CB(SC) graphs reflect an intermediate status indicating low immobile and high mobile fractions evolving from limited diffusion inside the nucleus. From this we assume that the artificially truncated CB is able to associate with nuclear matrix components. This nuclear affinity might be transferred to the naturally truncated Δ51CB form. Chromatin as a conceivable partner of interaction could be excluded from considerations by an OPM double labelling experiment of cells using GFP-tagged histone H2A and CB(SC) inasmuch as no colocalization could be observed. The relatively high amount of mobile CB(SC) might depend on scarcity of interaction partners: we have to consider that the CB products are overexpressed, other than their possible counterparts.
It was reported that the naturally truncated Δ51CB was directed to the mitochondria and that the cells died after fragmentation of the nucleus ; our observations confirm these findings. We suppose that nuclear targeting of Δ51CB might be overwhelmed by the present MTS.
Removal of this sequence in the artificially truncated Δ72CB and in further modified constructs results in their nuclear targeting and accumulation. Both overexpressed natural and artificial constructs lead to the same consequence, namely nuclear fragmentation and cell death. Neither we nor others  could prove that the induced cell death arises from apoptosis.
It was described that cell death can be preceded by a release of mature and active CB from the lysosomes and by the appearance of CB in the nucleus . Our studies of the artificially truncated constructs support these observations. Any truncated forms of CB proved to have no regular CB enzymatic activity. A proper refolding of Δ51CB to an enzymatically active form was demonstrated under in vitro conditions . However, one has also to take into consideration a different cleavage activity or functionality for the truncated variant(s) of CB. Such was recently found in case of truncated cathepsin L  and probably also cathepsin H .
The significance of results, which are obtained by overexpression, is often a contentious issue. Two arguments support the validity of our results: (i) Generally, expression levels of transfected cell populations diverge largely among individual cells. In case of CB(SC), the response to expression is severe and comprises also cells with obviously negligible expression. (ii) Time lapse video sequences demonstrate a granulation and a directed transport of CB(SC) to the nuclear region followed by fusion with the nucleus (see supplemental material).
Naturally appearing variations of CB and other related enzymes exhibit changed physiological characteristics and function as metabolic regulators in different states of diseases. We examined the nature of truncated CB by mutational analysis of extrinsic CB forms combined with advanced fluorescence microscopy. According to our results, artificially truncated CB forms lacking the MTS accumulated within the cell nucleus by an active transport mechanism and revealed binding affinity to nuclear matrix compounds. The region responsible for nuclear targeting resides in the C-terminal part of the protein. A hierarchy of signals is discussed. Expression of artificially truncated CB affected the cell viability to a large extent. Emerging from this, one has to raise the question whether the traditional understanding of distinct CB populations in terms of "normal" and "aberrant" might be misleading and thus has got to be reconsidered.
Investigations were performed on LCLC-103H cells derived from a human large cell lung carcinoma (ATCC# CCL5, DSMZ# 384). In addition to the original classification of these cells, it was now found that they are point-mutated in the p53 gene leading to an inactive p53. In control experiments, additional cell lines were used: HeLa (ATCC# CCL2), HEK-293 (DSMZ# 305), Wi-38 (ATCC# CCL75), primary human microvascular endothelial cells (HDMEC), Hep-G2 (DSMZ# 180), COS-7 (ATCC# CRL1651), and MDCK (ATCC# CCL34). The cell lines were cultured according to the recommendations of the suppliers.
For microscopical studies, the cells were seeded on 4.2 cm-diameter coverslips or on Lab-Tek® Chambered Cover Glasses (Nunc, Wiesbaden, Germany) at a density of 104cm-2 and transfected 12–15 h later at ~70% confluence with ~150 ng of the appropriate plasmid DNA by FuGENE6™ (Roche Molecular Biochemicals) according to the supplier's instructions. In double transfection experiments, equal masses of DNA were applied.
Prior to observation, the coverslips with the transfected cells were mounted in perfusion chamber holders (PeCon, Erbach, Germany). The samples were observed 24–72 h post transfection at 34–36°C and 5% CO2.
Digital wide field microscopy (WFM)
Images were obtained by an Axiovert S100TV (Zeiss, Jena, Germany). It was equipped with long distance condenser and objectives (Neofluar® 10×/0.30 Ph, LD Apochromat® 20×/0.40 Ph, LD Apochromat® 40×/0.60 Ph, Fluar® 40×/1.30 Oil, Plan-Neofluar® 63×/1.25 Oil Ph, C-Apochromat® 40×/1.20 W, Plan-Apochromat® 63×/1.4 Oil), a CCD camera (Orca C4742-95, Hamamatsu Photonics, Hamamatsu, Japan), shutters, macro (Ludl Electronic Products Ltd., Hawthorne, NY, USA) and piezo (Pifoc720, PI, Karlsruhe, Germany) focus drives, and an incubator to guarantee proper growth conditions in long-term experiments. The automated filter wheels (Ludl) contained filters for ECFP (Ex 436/10, DiM 455, Em 480/40), EGFP (Ex 488/20, DiM 505, Em 535/40), EYFP (Ex 515/10, DiM 530, Em 560/40) (Chroma, Brattleboro, VT, USA), and Cresyl Violet (Ex 560/40; DiM 590; Em 600 LP) (Omega Optical Inc., Brattleboro, VT, USA) fluorescence detection. Image acquisition was controlled by the OpenLab software (Improvision, Coventry, UK). Optical slices were partly subjected to built-in deconvolution algorithms and processed to 3D-restoration by the Amira™ software (TGS Europe, Düsseldorf, Germany).
Single scans and serial images for time-lapses were acquired by an Eclipse TE300 microscope (Nikon, Düsseldorf, Germany) using a Plan-Apochromat® 60×/1.2 W objective (Nikon). A pulsed (13.2 ns) mode-locked Mira900-F Ti:sapphire laser (Coherent, Santa Clara, CA, USA) was pumped by a Verdi™ argon laser (Coherent). TPM was performed at 860 nm; fluorescence was detected consecutively at 470/30 nm (ECFP), at 535/30 nm (EYFP), or at 510/20 nm (EGFP), respectively. Microscopical set-up and image processing were described in detail previously .
Nucleoplasmic diffusion of the fluorescent protein chimeras was analysed by photobleaching of living cells as described in  and shown exemplarily for the H2A-EGFP construct (Fig 5A). Besides minor modifications to the original work, which had to be introduced for technical reasons and which are described below in detail, TPM was used instead of OPM.
Fluorescence recovery after photobleaching (FRAP)
A nuclear region of 21.8 × 21.8 μ m2 was scanned to describe the situation before bleaching (total scanning time: 2.033s; period duration: 5 μ s). The fluorescence was monitored at the respective emission wavelengths (see above) with 5 mW incident laser power. No cell damage was observed with the chosen illumination parameters. Within this area, a smaller region of interest (ROI) of 2 × 2 μ m2 was bleached completely by 10 continuous scans (total bleaching time: 20.33 s). The selection was reset manually to the region at the beginning and a series of 50 consecutive single scans was recorded; the delay between bleaching and start of recording was ~2 s. About 8% of the initial EGFP fluorescence and up to 30% of the ECFP or EYFP intensity were depleted by the additional post-bleaching irradiation. Mean grey values of the images were evaluated by the Scion Image software (Scion Corporation; Las Vegas, NV, USA). The relative fluorescence intensity values, I rel , were normalized according equation (1)
where T0 is the total intensity before bleaching, T t the total intensity at various time points t, I0 the intensity of the prebleached ROI, and I t the intensity of the ROI at the corresponding time points. The share of the mobile fraction, F m , was calculated by equation (2)
where I∞ is the fluorescence in the ROI reaching a plateau after complete recovery, I i the intensity during prebleach and I b the intrinsic background fluorescence, which was negligibly low in our case. The effective diffusion coefficient, D eff , is conversely proportional to the characteristic diffusion time, τ D , which can be determined from the time value at I∞/2. For a more complex view of the calculations refer to [52, 53].
The same basic parameters and evaluation tools as described for FRAP were used. A series of 30 consecutive images was grabbed within a square ROI of 2 μ m border width. Overview scans before and after the series were taken for comparison. The grey values of the ROI were normalized to their respective initial value and fitted by a regression function which was composed of two partial exponential terms by the SigmaPlot software (Systat Software, Inc., Point Richmond, CA, USA).
Determination of the mortality rates
Mortality of transiently transfected LCLC-103H cell populations was quantified after a propidium iodide (Sigma-Aldrich, Taufkirchen, Germany) staining by a FACSCalibur™ flow cytometer (Becton-Dickinson, Heidelberg, Germany). The cell concentration was 2–8 × 105 cellsml-1 in a measure volume of 50 μ l. Efficiency of transfection was determined by EGFP fluorescence in the FITC channel; dead cells stained by propidium iodide were monitored in the propidium iodide channel (excitation at 488nm each). The data were evaluated by the EPICS® profile analyser software (Coulter Corp., Hialeah, FL, USA).
LCLC-103H cells transiently expressing CB(SC)-EGFP were checked for plasma membrane integrity and DNA fragmentation as indicators for apoptosis.
Plasma membrane perforation: At the cellular level, early stage apoptosis was examined by the AnnexinV-assay as described by the supplier (Roche Molecular Biochemicals, Mannheim, Germany). Cells were stained by AnnexinV and propidium iodide and subjected to fluorescence microscopy and FACS analysis.
DNA fragmentation: Genomic DNA was isolated and cleared of RNA using the DNA ladder kit (Roche Diagnostics, Mannheim, Germany) according to the instructions. Apoptosis was triggered by 5 μ m etoposide (Sigma-Aldrich) or MG115 (Sigma-Aldrich) in control cells. The samples were then subjected to agarose gelelectrophoresis.
Besides GFP, synthetic living cell markers and immunolabels were used.
Living cell staining
Nuclear DNA was stained with 2 μ gml-1 Hoechst33342 (Sigma-Aldrich), lysosomes were marked with 50 nM LysoTracker Red (Molecular Probes, Leiden, The Netherlands).
Methanol fixed cells immobilized onto poly-lysine coated cover slips were treated with antibodies (Abs) against CB (primary Ab: α-hCB-shIgG, BioAss, Herrsching, Germany; secondary Ab: α-sh-dIgG(HC+LC)-Cy3, Dianova, Hamburg, Germany), GFP (primary Ab: α-GFP-rIgG, Clontech, Heidelberg, Germany; secondary Ab: α-r-gIgG(HC+LC)-Cy3, Dianova), and the myc-epitope (primary Ab: α-myc-mIgG; secondary Ab: α-m-dIgG-Texas Red). Finally, the cover slips were mounted onto slides with Mowiol (Calbiochem, Schwalbach, Germany).
Determination of the enzymatic activity
CB-specific activity was determined invivo by digital widefield microscopy (WFM). The fluorogenic substrate (Z-Arg-Arg)2-cresyl violet was added into the culture medium at 25 μ m and the following enzymatic reaction was monitored by the release of the fluorescent dye cresyl violet in 1 min intervals over a period of 10 min. For quantitative purposes, we used invitro activity assays, which were performed as described .
SDS-PAGE and Western Blot analysis – Proteins were separated on 12% polyacrylamide SDS gels followed by an electro transfer to a nitrocellulose membrane and detected by appropriate Abs using alkaline phosphatase by standard procedures.
Cloning and mutational analysis
The sequence encoding the single chain form of human CB, CB(SC), was amplified from a known cDNA (IMAGE clone ID 380482; Deutsches Ressourcenzentrum für Genomforschung, Berlin, Germany) by PCR. It was subcloned into pcDNA3 (Invitrogen; NV Leek, NL) and tagged by appropriate fluorescent proteins (Clontech) analogously to the CB(FLM) sequence as described previously . The CB(SC) sequence served as template for further mutation variants. Additional ATG start codons ensured proper translation. The artificially truncated sequence Δ72CB appeared as a by-product in the cloning process of CB(FLM) caused by an internal Kpn I restriction site. Specific mutations (insertion, deletion, conversion) were introduced into the CB sequence by site-specific mutagenesis using standard PCR procedures. All constructs were verified by DNA sequencing.
Synthesized forward (fd) and reverse (rv) primers (Pharmacia; DKFZ) were used for PCR amplification of modified CB constructs. They contained restriction sites for cloning into pcDNA3 (underlined in the following primer sequences): SC-fd-Kpn I: GGGGTACC ATGCTGCCTGCAAGCTTCGATG, myc-SC-fd-Kpn I: GGGGTACC ATGGAGCAGAAGCTGATCTCCGAGGAGGACCTGCTGCCTGCAAGCTTCGATGCACGG, SC-X-rv-Not I: GGCGGCCGC TTAATCGGTGCGTGGAATTCCAGC, [ΔC'pro]SC-rv-Sal I: GGGTCGAC GATCTTTTCCCAGTACTGATCG, LC-rv-Sal I: GGGTCGAC ATTGGTGTGGATGCAGATGCGG, HC-fd-Kpn I: GGGGTACC ATGGTCAGCGTGGAGCTGTCGG, HCN'-rv-Sal I: GGGTCGAC ATTGTATCCGTAGTGCTTGTCC, HCC'-fd-Kpn I: GGGGTACC ATGAATTCCTACAGCGTCTCCA, HCC'1-fd-Kpn I: GGGGTACC ATGGAGATCTACAAAAACGGCC, HCC'2-fd-Kpn I: GGGGTACC ATGGTGTATTCGGACTTCCTGC, HCC'3-fd-Kpn I: GGGGTACC ATGCAACACGTCACCGGAGAGA, HCC'4-fd-Kpn I: GGGGTACC ATGCGCATCCTGGGCTGGGGAG, [E273L]SC-fd: CCAACACGTCACCGGACTGATGATGGGTGGCCATG, [E273L]SC-rv: CATGGCCACCCATCATCAGTCCGGTGACGTGTTGG, [E273del]SC-fd: ACCAACACGTCACCGGAATGATGGGTGGCCATGCC, [E273del]SC-rv: GGCATGGCCACCCATCATTCCGGTGACGTGTTGGT, [Q268_G277del]SC-fd: TACAAGTCAGGAGTGTACCATGCCATCCGCATCCTG, [Q268_G277del]SC-rv: CAGGATGCGGATGGCATGGTACACTCCTGACTTGTA, [L80_L283]SC-rv-Sal I: GGGTCGAC CAGGATGCGGATGGCATGGCCA.
The spatial orientation of the mutated regions was visualized by the molecular modelling software PyMOL™ (v0.97, © DeLano Scientific LLC, San Carlo, California, USA). The reconstruction was based on crystallographic data of a mature CB protein (PDB-Id: 1huc).
We would like to thank the following persons for their support: Bernd Werle (Thoraxklinik, Heidelberg, Germany; enzymatic activity measurements), Karsten Richter (DKFZ; OPM), Helmut Acker and Torsten Porwol (MPI für Molekulare Physiologie, Dortmund, Germany; TPM), and Andreas Hunziker (DKFZ; sequencing). We are also grateful to Birgit Krahling (DKFZ) for providing the primary endothelial cells, Ron van Noorden (Amsterdam; Netherlands) for the (Z-Arg)2-cresyl violet substrate, Jörg Uhlmann (DKFZ) for the α-myc-Abs, Gergana Dobreva (DKFZ) for TIF1A-EGFP, Tobias A. Knoch (DKFZ) for H2A-EGFP, and particularly to Kathrin Müntener (University of Zürich, Switzerland) for the generous provision of the Δ51CB-EGFP construct. We appreciate Christina Barther (Heidelberg), Christoph Spiess (Stanford University, USA), and Malte Wachsmuth (KIP, University of Heidelberg, Germany) for critical reading of the manuscript.
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