Abstract
The von Hippel–Lindau (VHL) tumour suppressor protein is important in the E3 ubiquitin ligase ECV (Elongin B/C–CUL2–VHL)-mediated destruction of hypoxia-inducible factor and the promotion of fibronectin (FN) extracellular matrix assembly. Although the precise molecular mechanism controlling the selectivity of VHL function remains unknown, a failure in either process is associated with oncogenic progression. Here, we show that VHL performs its FN-associated function independently of the ECV complex, highlighting the autonomy of these pathways. Furthermore, we show that NEDD8, a ubiquitin-like molecule, acts as a ‘molecular switch' in which its covalent conjugation to VHL prohibits the engagement of the scaffold component CUL2 and, concomitantly, activates the association with FN. These findings provide the first mechanistic step in defining the functional selectivity of VHL and explain a previously unrecognized function of NEDD8.
Keywords: CUL2, ECV, fibronectin, HIF, NEDD8, VHL
Introduction
Inheritance of one faulty von Hippel–Lindau (VHL) allele is the cause of VHL disease, which is characterized by the development of retinal, cerebellar and spinal haemangioblastomas, phaeochromocytoma and renal clear-cell carcinoma (RCC; Kaelin, 2002). Tumorigenesis begins with the loss or inactivation of the remaining wild-type VHL allele in a susceptible cell (Kaelin, 2002). Biallelic inactivation of the VHL locus is also responsible for the development of most of the sporadic RCC, establishing VHL as a crucial ‘gatekeeper' gene of the renal epithelium (Kaelin, 2002).
The phenotypic variation observed in relatives that carry mutations in VHL (VHL kindred) are due to alterations in tissue-specific functions or in the severity with which certain VHL functions are altered. The two most well-characterized functions of VHL are as a negative regulator of hypoxia-inducible factor (HIF), which is the main transcription factor that activates the expression of many hypoxia-inducible genes to counter the detrimental effects of compromised oxygen availability (Kaelin, 2002), and as a positive regulator of fibronectin (FN) extracellular matrix (ECM) assembly (Roberts & Ohh, 2008).
ECV (Elongin B/C–CUL2–VHL) is an SCF (SKP1/CDC53 or CUL1/F-box protein)-like E3 ubiquitin ligase in which VHL acts as a substrate-conferring component that recruits the α-subunits of HIF. These have been modified with hydroxyl groups on conserved prolyl residues within the oxygen-dependent degradation domain (ODD) by a class of prolyl hydroxylases in an oxygen-dependent manner (Kaelin, 2002). This mechanistic insight explains why HIFα is stabilized under hypoxia to bind to constitutively expressed HIFβ (also known as aryl hydrocarbon receptor nuclear translocator) to form an active heterodimeric transcription factor. Concordantly, cells under hypoxia or tumour cells devoid of VHL irrespective of oxygen tension have enhanced expression of HIF target genes, such as VEGF (vascular endothelial growth factor), GLUT1 (glucose transporter 1) and EPO (erythropoietin; Roberts & Ohh, 2008). The overexpression of hypoxia-inducible genes probably contributes to the hypervascular nature of VHL disease-associated tumours, and supports the idea that constitutive stabilization of HIFα is a crucial oncogenic event following the loss of VHL (Roberts & Ohh, 2008).
VHL also binds to FN and this physical interaction represents a requisite step in the promotion of correct ECM assembly (Ohh et al, 1998). All tumour-causing VHL mutants tested so far show a striking failure in binding to and/or in the assembly of FN (Clifford et al, 2001; Hoffman et al, 2001). Recently, VHL was also shown to interact with collagen IV (COLIV) to promote its deposition in the extracellular space (Grosfeld et al, 2007; Kurban et al, 2008). These findings underscore the significance of VHL-mediated ECM assembly in tumour suppression. Kurban et al (2006) showed that the loss of correct FN ECM promotes angiogenesis of RCC xenograft in an HIF-independent manner and that HIFα stabilization in the context of intact FN ECM results in tumours with low microvessel density despite the overexpression of VEGF. Tang et al (2006) showed, in mice with conditional knockout of VHL in endothelial cells, that VHL has a crucial role in the vascular FN ECM assembly, independent of its role in regulating HIFα. In addition, studies of genomic clustering in Caenorhabditis elegans identified a discrete HIF-independent role of VHL in ECM function (Bishop et al, 2004). Although these studies highlight the HIF-independent FN assembly function of VHL, the mechanism controlling the selectivity of VHL functions remained unknown.
Until recently, the ubiquitin-like molecule NEDD8 has been thought to conjugate exclusively to Cullins, in a manner analogous to ubiquitylation, to enhance the activity of SCF and ECV complexes (Pan et al, 2004; Sufan & Ohh, 2006). Emerging evidence has shown NEDD8 to be more versatile in substrate specificity and, importantly, several proteins involved in oncogenesis, including VHL, p53, murine double minute 2 (MDM2), p73, epidermal growth factor receptor and the breast cancer-associated protein 3, have now been shown to be targets of NEDD8 modification (Stickle et al, 2004; Xirodimas et al, 2004; Gao et al, 2006; Oved et al, 2006; Watson et al, 2006). In addition, the functional consequence of neddylation was found to be more diverse than previously thought, extending beyond the enhancement of the ubiquitin–proteasome pathway. Here, we provide evidence that NEDD8 acts as a ‘molecular switch' in which its covalent conjugation to VHL precludes ECV formation by steric hindrance and, concomitantly, allows interaction with FN, thereby providing the first mechanistic step in the definition of the functional selectivity of VHL.
Results And Discussion
ECV- and FN-functions of VHL are mutually exclusive
The ability of VHL to regulate HIF is dependent on its ability to form a functional ECV. Therefore, we investigated whether the ability of VHL to bind to FN was also dependent on ECV. VHL-associated FN was immunoprecipitated after short interfering RNA (siRNA)-mediated knockdown of CUL2, a scaffold component of ECV, in 35S-radiolabelled VHL-null RCC4 renal carcinoma cells ectopically expressing haemagglutinin (HA)-VHL (WT) or empty plasmid (MOCK). The level of FN co-precipitating with VHL did not decrease despite a marked reduction in CUL2 expression (Fig 1; supplementary Fig S2E online). As expected, siRNA-mediated knockdown of CUL2 attenuated VHL-dependent ubiquitylation of HIF1αODD (supplementary Fig S2C online). Furthermore, biotinylated HIF1αODD-OH peptides co-precipitated ECV components without the presence of FN, as compared with FN co-precipitated from 35S-radiolabelled 786-VHL RCC cells using an HA antibody directed against HA-VHL (Fig 1C, compare lanes 2 and 3). Although it is possible that HIF1αODD-OH peptides might have displaced FN by competition for VHL, hypoxia or hypoxia-mimetic (desferroxamine or CoCl2) treatment of 786-VHL cells did not increase VHL/FN interaction (supplementary Fig S3 online). These results argue against the idea that VHL binding to FN is influenced by competition with HIFα, and suggest that ECV complex is not necessarily required for VHL to bind to FN.
Disruption of NEDD8 pathway abrogates FN binding
Recently, we have shown that mutations in VHL that disrupt NEDD8 conjugation lead to a failure in binding to FN (Stickle et al, 2004). To investigate further whether VHL binding to FN is dependent on the NEDD8 pathway independent of ECV complex formation, ts41 Chinese hamster ovary (CHO) cells with temperature-sensitive APP-BP1 (a component of NEDD8-activating enzyme; Chen et al, 2000) were transiently transfected with plasmids encoding HA-VHL and green fluorescent protein (GFP)-FN. VHL binding to FN was markedly decreased in cells maintained under a restrictive temperature as compared with cells under a permissive temperature (Fig 2A), indicating that an intact NEDD8 pathway is crucial for promoting VHL binding to FN. As expected, neddylation of VHL and CUL2 was curtailed under a non-permissive temperature (Fig 2B,C). An intact ECV able to bind to HIF1α was observed under both restrictive and permissive temperature conditions (Fig 2C), indicating that the ability of VHL to form an ECV is not sufficient for binding to FN. Furthermore, non-neddylatable VHL(RRR) (Stickle et al, 2004), although with a similar subcellular distribution pattern as VHL(WT) (supplementary Fig S4 online), has a compromised ability to bind to FN (Stickle et al, 2004; supplementary Fig S2 online). These results indicate that neddylation of VHL does not promote FN binding by altering the subcellular localization of VHL, which binds to the cytosol-exposed region of FN in the endoplasmic reticulum/Golgi (supplementary Fig S4 online).
Neddylation of VHL precludes ECV complex formation
VHL contains two important functional domains: α and β(19). The β-domain is required for binding to substrates (Stebbins et al, 1999; Ohh et al, 2000) and the α-domain is required for binding to Elongin C (Stebbins et al, 1999), which acts as a bridge connecting VHL to the rest of the ECV components. Residues spanning 158–172 (Elongin B/C-box) within the α-domain have been shown to be necessary and sufficient for binding to Elongin C (Ohh et al, 1999), and Lys 159 has been shown to be the main acceptor site of NEDD8 (Stickle et al, 2004). ECV is analogous to SCF both structurally and functionally. Although ECV has not been crystallized, SCF (Zheng et al, 2002) and the VHL–Elongin B/C (VBC) complex (Stebbins et al, 1999; Min et al, 2002) have been solved. To determine the possible effects of NEDD8 conjugation to VHL, we superimposed the VBC complex against SCF. In particular, SKP1 and its orthologue Elongin C polypeptide backbones were aligned within 1.3 Å, giving confidence that CUL1 would be positioned similarly to CUL2 in the context of ECV. On the basis of the composite VBC CUL1 structure, NEDD8 conjugation of VHL at Lys 159 would create significant steric hindrance that would prohibit the incorporation of CUL2 or possibly Elongin C to VHL (Fig 3A,B). On the basis of the this prediction, a VHL mutant unable to bind to Elongin C owing to a mutation within the Elongin B/C-box (excluding Lys 159 and Lys 171) would be more accessible for NEDD8 modification. Human embryonic kidney (HEK)293A cells were transfected with plasmids encoding T7-NEDD8 in combination with plasmids encoding HA-VHL(WT), non-neddylatable HA-VHL(RRR) and HA-VHL(C162F), a well-established α-domain mutant unable to bind to Elongin C (Ohh et al, 2000, 1999). As expected, HA-VHL(WT) generated a slower migrating T7-NEDD8-conjugated HA-VHL, whereas HA-VHL(RRR) failed to generate a NEDD8-modified isoform (Fig 3C). Consistent with the steric hindrance model, HA-VHL(C162F) was neddylated to a greater extent in comparison with VHL(WT) (Fig 3C). Furthermore, although the neddylated VHL comprises a minor fraction of total VHL, significantly less neddylated VHL was found in complex with CUL2 (Fig 3D, compare lanes 1 and 2), indicating an exclusion of neddylated VHL in the ECV complex. These results indicate that neddylation of VHL generates a steric clash preventing its association with the ECV complex.
CUL2 is excluded from the VHL–FN complex
The NEDD8-induced steric hindrance model predicts the exclusion of one or more ECV components, which might be necessary for the promotion of FN-mediated function. To determine directly whether ECV components are excluded from the VHL–FN complex, we performed affinity purification of intracellular FN from 786-MOCK, 786-WT and 786-C162F cells. FN-containing complexes were then competitively eluted from the Sepharose beads and immunoprecipitated with an HA antibody selecting for the FN complexes associated with HA-VHL. As expected, HA-VHL(WT) was present in the affinity-purified FN complex and co-precipitated FN, whereas a disease-causing HA-VHL(C162F) mutant, which has an intrinsic defect in FN binding (Stickle et al, 2004), was absent in the affinity-purified FN complex (Fig 4A, lanes 4,5). Equal amounts of whole-cell extracts were separated by SDS–polyacrylamide gel electrophoresis, and immunoblotted for total FN and HA-VHL, which indicated the presence of FN in all the indicated cell types (Fig 4A, lanes 1–3). Notably, FN is known to bind to COLIV, which has been shown recently to interact with VHL. However, the affinity-purified FN co-precipitated by means of HA-VHL did not contain COLIV (supplementary Fig S1B online), indicating that VHL binds to FN independently of COLIV. Next, anti-HA immunoprecipitations were performed on the whole-cell extracts or affinity-purified intracellular FN complexes generated from 786-MOCK, 786-WT and 786-C162F cells (Fig 4B). HA-VHL(WT) co-precipitated CUL2 from the whole-cell extracts as expected, whereas HA-VHL(WT) in the FN complex did not (Fig 4B, compare lanes 2 and 5). In parallel, an anti-HA immunoprecipitation from the affinity-purified FN complex from 35S-radiolabelled 786-VHL cells showed an absence of CUL2, but the presence of Elongins B and C in the HA-VHL–FN complex (Fig 4C). These results show that CUL2 is excluded from the VHL–FN complex. Notably, the exclusive presence of unneddylated VHL in complex with FN (Fig 4; supplementary Figs S1,S5B online) also indicates that the neddylation of VHL represents an intermediary step that prohibits CUL2 engagement, which is proceeded by deneddylation of VHL allowing unhindered association with FN.
NEDD8 acts as a ‘molecular switch'
In keeping with the prediction based on the composite VBC-CUL1 structure (Fig 3), NEDD8 modification of VHL prevents CUL2 engagement and thus is excluded from the ECV complex. This ‘freed', although minor, pool of VHL binds to FN, representing a requisite step in the eventual assembly of the extracellular FN matrix. VHL in complex with FN is unmodified, which indicates that VHL is transiently modified by a dynamic neddylation and deneddylation process. In agreement with this, inhibition of the NEDD8 pathway or ablation of the NEDD8 conjugation sites on VHL markedly attenuated the ability of VHL to interact with FN while preserving ECV integrity. The requirement of this dynamic process also explains why the non-neddylatable VHL(RRR) mutant is defective in FN binding and assembly.
The preclusion of CUL2 in the VHL–FN complex also indicates that the physical presence of CUL2 might be inhibitory in the engagement of FN to VHL. In support of this idea, a near-complete knockdown of CUL2 increased the amount of FN bound to VHL (supplementary Fig S2E online). In a complementary experiment, HA-VHL from 786-WT and 786-RRR cells was immunoprecipitated and washed under high stringency salt and detergent conditions to strip away VHL-associated proteins. The ‘stripped' VHL was then mixed with radiolabelled VHL-null 786-O cell lysates and re-immunoprecipitated. Under such conditions, the ability of VHL(RRR) to bind to de novo FN was restored to a level comparable with that of VHL(WT). VHL(C162F) was still unable to bind to FN (supplementary Figs S2B,S5C online), which is consistent with the idea that Elongins B and C are required for VHL–FN interaction. Furthermore, a direct interaction between FN and VHL was shown to not require CUL2, as a VBC complex lacking CUL2 was sufficient to bind to FN (Hoffman et al, 2001). These results indicate that the deficiency of non-neddylatable VHL is due to its inability to disengage CUL2 or CUL2-associated inhibitory factors in the absence of dynamic NEDD8 processing. Elongins B and C are likely to provide stability to the unstable tertiary structure of VHL (Stebbins et al, 1999; Feldman et al, 2003) in the VHL–FN complex. The structural requirement provided by Elongins B and C perhaps explains why α-domain VHL mutants, including C162F, fail to bind to FN. In this regard, and analogous to HIFα, FN binding by VHL requires direct physical interaction and the association of Elongins.
VHL is important in ECV-mediated destruction of HIFα and the assembly of FN ECM. Neddylation of VHL prohibits the engagement of CUL2 and concomitantly activates the association with FN. Thus, NEDD8 acts as a molecular switch that defines the functional selectivity of VHL, and provides the first mechanistic demarcation of HIF-dependent and HIF-independent pathways.
Methods
Cells. 786-O RCC, U2OS osteosarcoma and HEK293A cell lines were obtained from the American Type Culture Collection (Rockville, MD, USA) and maintained in Dulbecco's modified Eagle's medium supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milwaukee, WI, USA) at 37°C in a humidified 5% CO2 atmosphere. 786-O subclones ectopically expressing wild-type VHL (786-WT) or empty plasmid (786-MOCK), RCC4 cells ectopically expressing wild-type VHL (RCC4-WT) or empty plasmid (RCC4-MOCK), and ts41 CHO cells were as described previously (Ohh et al, 1998; Chen et al, 2000; Clifford et al, 2001).
Antibodies. Monoclonal HA (12CA5) and HIF1α antibodies were obtained from Boehringer Ingelheim (Laval, QC, Canada) and Novus Biological (Littleton, CO, USA), respectively. Monoclonal T7 antibody was obtained from Novagen (Madison, WI, USA). Monoclonal vinculin, tubulin and heteronuclear ribonuclear protein antibodies were obtained from Abcam (Cambridge, MA, USA). Polyclonal GLUT1 and CUL2 antibodies were obtained from Alpha Diagnostics (San Antonio, TX, USA) and Zymed (San Francisco, CA, USA), respectively. Monoclonal VHL antibody (IG32) was as described previously (Ohh et al, 1998).
Plasmids. See the supplementary information online.
Immunoprecipitation and immunoblotting. Immunoprecipitation and western blotting were performed as described previously (Ohh et al, 1998).
Affinity purification. Gelatin-Sepharose beads (Amersham Pharmaceuticals, Piscataway, NJ, USA) were used to affinity purify FN from whole-cell extracts by rocking at 4°C for 3 h. FN complexes were eluted in 250 mM arginine in PBS, rocking for 10 min at 22°C, as previously described (Vuento & Vaheri, 1978).
Metabolic labelling. Metabolic labelling was performed as described previously (Ohh et al, 1998).
Supplementary information is available at EMBO reports online (http://www.emboreports.org).
Supplementary Material
Acknowledgments
This work was supported by funds from the Canadian Cancer Society of the National Cancer Institute of Canada. R.C.R. is a recipient of the Natural Sciences and Engineering Research Council of Canada scholarship; M.O. is a Canada Research Chair in Molecular Oncology.
Footnotes
The authors declare that they have no conflict of interest.
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