Mammalian Dynein Research Articles

Nde1 promotes Lis1-mediated activation of dynein

Cytoplasmic dynein drives the motility and force generation functions towards the microtubule minus end. The assembly of dynein with dynactin and a cargo adaptor in an active transport complex is facilitated by Lis1 and Nde1/Ndel1. Recent studies proposed that Lis1 relieves dynein from its autoinhibited conformation, but the physiological function of Nde1/Ndel1 remains elusive. Here, we investigate how human Nde1 and Lis1 regulate the assembly and subsequent motility of mammalian dynein using in vitro reconstitution and single molecule imaging. We find that Nde1 recruits Lis1 to autoinhibited dynein and promotes Lis1-mediated assembly of dynein-dynactin adaptor complexes. Nde1 can compete with the α2 subunit of platelet activator factor acetylhydrolase 1B (PAF-AH1B) for the binding of Lis1, which suggests that Nde1 may disrupt PAF-AH1B recruitment of Lis1 as a noncatalytic subunit, thus promoting Lis1 binding to dynein. Before the initiation of motility, the association of dynactin with dynein triggers the dissociation of Nde1 from dynein by competing against Nde1 binding to the dynein intermediate chain. Our results provide a mechanistic explanation for how Nde1 and Lis1 synergistically activate the dynein transport machinery.

Intermediate filaments associate with aggresome-like structures in proteostressed C. elegans neurons and influence large vesicle extrusions as exophers

Toxic protein aggregates can spread among neurons to promote human neurodegenerative disease pathology. We found that in C. elegans touch neurons intermediate filament proteins IFD-1 and IFD-2 associate with aggresome-like organelles and are required cell-autonomously for efficient production of neuronal exophers, giant vesicles that can carry aggregates away from the neuron of origin. The C. elegans aggresome-like organelles we identified are juxtanuclear, HttPolyQ aggregate-enriched, and dependent upon orthologs of mammalian aggresome adaptor proteins, dynein motors, and microtubule integrity for localized aggregate collection. These key hallmarks indicate that conserved mechanisms drive aggresome formation. Furthermore, we found that human neurofilament light chain (NFL) can substitute for C. elegans IFD-2 in promoting exopher extrusion. Taken together, our results suggest a conserved influence of intermediate filament association with aggresomes and neuronal extrusions that eject potentially toxic material. Our findings expand understanding of neuronal proteostasis and suggest implications for neurodegenerative disease progression.

Nano-Particles Carried by Multiple Dynein Motors Self-Regulate Their Number of Actively Participating Motors.

Intra-cellular active transport by native cargos is ubiquitous. We investigate the motion of spherical nano-particles (NPs) grafted with flexible polymers that end with a nuclear localization signal peptide. This peptide allows the recruitment of several mammalian dynein motors from cytoplasmic extracts. To determine how motor–motor interactions influenced motility on the single microtubule level, we conducted bead-motility assays incorporating surface adsorbed microtubules and combined them with model simulations that were based on the properties of a single dynein. The experimental and simulation results revealed long time trajectories: when the number of NP-ligated motors Nm increased, run-times and run-lengths were enhanced and mean velocities were somewhat decreased. Moreover, the dependence of the velocity on run-time followed a universal curve, regardless of the system composition. Model simulations also demonstrated left- and right-handed helical motion and revealed self-regulation of the number of microtubule-bound, actively transporting dynein motors. This number was stochastic along trajectories and was distributed mainly between one, two, and three motors, regardless of Nm. We propose that this self-regulation allows our synthetic NPs to achieve persistent motion that is associated with major helicity. Such a helical motion might affect obstacle bypassing, which can influence active transport efficiency when facing the crowded environment of the cell.

Lis1 activates dynein motility by modulating its pairing with dynactin.

Lissencephaly-1 (Lis1) is a key cofactor for dynein-mediated intracellular transport towards the minus-ends of microtubules (MTs). It remains unclear whether Lis1 serves as an inhibitor or an activator of mammalian dynein motility. Here we use single-molecule imaging and optical trapping to show that Lis1 does not directly alter the stepping and force production of individual dynein motors assembled with dynactin and a cargo adaptor. Instead, Lis1 promotes the formation of an active complex with dynactin. Lis1 also favors the recruitment of two dyneins to dynactin, resulting in increased velocity, higher force production and more effective competition against kinesin in a tug-of-war. Lis1 dissociates from motile complexes, indicating that its primary role is to orchestrate the assembly of the transport machinery. We propose that Lis1 binding releases dynein from its auto-inhibited state, which provides a mechanistic explanation for why Lis1 is required for efficient transport of many dynein-associated cargoes in cells.

Kinesin and dynein use distinct mechanisms to bypass obstacles.

Kinesin-1 and cytoplasmic dynein are microtubule (MT) motors that transport intracellular cargoes. It remains unclear how these motors move along MTs densely coated with obstacles of various sizes in the cytoplasm. Here, we tested the ability of single and multiple motors to bypass synthetic obstacles on MTs in vitro. Contrary to previous reports, we found that single mammalian dynein is highly capable of bypassing obstacles. Single human kinesin-1 motors fail to avoid obstacles, consistent with their inability to take sideways steps on to neighboring MT protofilaments. Kinesins overcome this limitation when working in teams, bypassing obstacles as effectively as multiple dyneins. Cargos driven by multiple kinesins or dyneins are also capable of rotating around the MT to bypass large obstacles. These results suggest that multiplicity of motors is required not only for transporting cargos over long distances and generating higher forces, but also for maneuvering cargos on obstacle-coated MT surfaces.

Cargo adaptors regulate stepping and force generation of mammalian dynein-dynactin.

Cytoplasmic dynein is an ATP-driven motor that transports intracellular cargos along microtubules. Dynein adopts an inactive conformation when not attached to cargo, and motility is activated when dynein assembles with dynactin and a cargo adaptor. It remained unclear how active dynein-dynactin complexes step along microtubules and transport cargos under tension. Using single-molecule imaging, we showed that dynein-dynactin advances by taking 8–32 nm steps towards the microtubule minus-end with frequent sideways and backward steps. Multiple dyneins collectively bear large tension because the backward stepping rate of dynein is insensitive to load. Recruitment of two dyneins to dynactin increases the force generation and the likelihood of winning against kinesin in a tug-of-war but does not directly affect velocity. Instead, velocity is determined by cargo adaptors and tail-tail interactions between two closely packed dyneins. Our results show that cargo adaptors modulate dynein motility and force generation for a wide range of cellular functions.

Incorporating Motility in the Motor: Role of the Hook Protein Family in Regulating Dynein Motility

Cytoplasmic dynein is a retrograde microtubule-based motor transporting cellular cargo, including organelles, vesicular intermediates, RNA granules, and proteins, thus regulating their subcellular distribution and function. Mammalian dynein associates with dynactin, a multisubunit protein complex that is necessary for the processive motility of dynein along the microtubule tracks. Recent studies have shown that the interaction between dynein and dynactin is enhanced in the presence of a coiled-coil activating adaptor protein, which performs dual functions of recruiting dynein and dynactin to their cargoes and inducing the superprocessive motility of the motor complex. One such family of coiled-coil activating adaptor proteins is the Hook family of proteins that are conserved across evolution with three paralogs in the case of mammals, namely, HOOK1-HOOK3. This Perspective aims to provide an overview of the Hook protein structure and the cellular functions of Hook proteins, with an emphasis on the recent developments in understanding their role as activating dynein adaptors.

Lissencephaly-1 is a context-dependent regulator of the human dynein complex.

The cytoplasmic dynein-1 (dynein) motor plays a central role in microtubule organisation and cargo transport. These functions are spatially regulated by association of dynein and its accessory complex dynactin with dynamic microtubule plus ends. Here, we elucidate in vitro the roles of dynactin, end-binding protein-1 (EB1) and Lissencephaly-1 (LIS1) in the interaction of end tracking and minus end-directed human dynein complexes with these sites. LIS1 promotes dynactin-dependent tracking of dynein on both growing and shrinking plus ends. LIS1 also increases the frequency and velocity of processive dynein movements that are activated by complex formation with dynactin and a cargo adaptor. This stimulatory effect of LIS1 contrasts sharply with its documented ability to inhibit the activity of isolated dyneins. Collectively, our findings shed light on how mammalian dynein complexes associate with dynamic microtubules and help clarify how LIS1 promotes the plus-end localisation and cargo transport functions of dynein in vivo.

The mammalian dynein-dynactin complex is a strong opponent to kinesin in a tug-of-war competition.

Kinesin and dynein motors transport intracellular cargos bidirectionally by pulling them in opposite directions along microtubules, through a process frequently described as a 'tug of war'. While kinesin produces 6 pN of force, mammalian dynein was found to be a surprisingly weak motor (0.5-1.5 pN) invitro, suggesting that many dyneins are required to counteract the pull of a single kinesin. Mammalian dynein's association with dynactin and Bicaudal-D2 (BICD2) activates its processive motility, but it was unknown how this affects dynein's force output. Here, we show that formation of the dynein-dynactin-BICD2 (DDB) complex increases human dynein's force production to 4.3 pN. An invitro tug-of-war assay revealed that a single DDB successfully resists a single kinesin. Contrary to previous reports, the clustering of many dyneins is not required to win the tug of war. Our work reveals the key role of dynactin and a cargo adaptor protein in shifting the balance of forces between dynein and kinesin motors during intracellular transport.

Tyrosination of α-tubulin controls the initiation of processive dynein-dynactin motility.

Post-translational modifications (PTMs) of α/β-tubulin are believed to regulate interactions with microtubule-binding proteins. A well-characterized PTM involves in the removal and re-ligation of the C-terminal tyrosine on α-tubulin, but the purpose of this tyrosination-detyrosination cycle remains elusive. Here, we examined the processive motility of mammalian dynein complexed with dynactin and BicD2 (DDB) on tyrosinated versus detyrosinated microtubules. Motility was decreased ~fourfold on detyrosinated microtubules, constituting the largest effect of a tubulin PTM on motor function observed to date. This preference is mediated by dynactin's microtubule-binding p150 subunit rather than dynein itself. Interestingly, on a bipartite microtubule consisting of tyrosinated and detyrosinated segments, DDB molecules that initiated movement on tyrosinated tubulin continued moving into the segment composed of detyrosinated tubulin. This result indicates that the α-tubulin tyrosine facilitates initial motor-tubulin encounters, but is not needed for subsequent motility. Our results reveal a strong effect of the C-terminal α-tubulin tyrosine on dynein-dynactin motility and suggest that the tubulin tyrosination cycle could modulate the initiation of dynein-driven motility in cells.

Mechano-Chemical Model for the Mechanism of Directed Processive Motility of Cytoplasmic Dynein

Linear motor proteins move along their tracks by performing a mechano-chemical cycle in which the conformational and binding affinity changes are coupled to the ATP hydrolysis cycle. Although the two way coupling between the catalytic site, track binding and lever motion is a universal feature of myosins, kinesins and dyneins, the experiments on mutants with one inactive motor head suggest that the dimeric motor could be functional with a less complex mechanism. In this talk we will discuss the minimal prerequisites for the dimeric motor to move processively in a directed fashion. Without any coupling between the catalytic site and binding domain, asymmetric unbinding of the trail/lead head and/or asymmetric binding in the forward/backward direction can be driven solely by an asymmetry in the force-induced unbinding rate, together with a conformation dependent internal tension of the dimeric motor. However, the stepping efficiency of such motility is much lower than that of a motor with further allosteric coupling. A more specific and complex mechano-chemical model for cytoplasmic dynein reproduces well the observed stepping efficiency, velocity and force production. By changing the strength of the interhead elastic interaction the model accounts both for uncoordinated and coordinated stepping characteristics of yeast and mammalian dyneins, as observed in recent single-molecule studies.

Regulation of Mammalian Dynein Intermediate Chain

Cytoplasmic dynein is a protein complex responsible for transporting cellular cargos on microtubules. Dynein's activities are regulated by other proteins including dynactin which mediates dynein-cargo interactions and increases dynein's processivity. The intermediate chain (IC) of dynein binds to dynactin p150Glued subunit, an interaction central to dynein regulation. The N-terminal domain of IC, N-IC is partially disordered, and contains binding site for a coiled-coil domain of p150Glued and a serine-rich region known to undergo phosphorylation in vivo. There are conflicting results to the effect of phosphorylation on dynactin binding. Using different techniques, one group showed phosphorylated S84 and a phosphomimetic mutant S84D abolished p150Glued binding in vitro while another group demonstrated S84D was still able to bind. We use mutagenesis, constructs of varying length, isothermal titration calorimetry (ITC) and NMR spectroscopy to identify the effect of phosphomimetic S84D on structure of IC and its ability to bind p150Glued. Backbone assignments of IC2C1-96 and secondary chemical shifts show residues 4-38 (helix 1) and 52-66 (helix 2) adopt helical structures and the rest of the protein is disordered. NMR and ITC titration studies identify the first 44 residues as sufficient for binding. The phosphomimetic mutant IC2CS84D abolishes p150Glued binding, without causing major changes in structure and dynamics as detected from NMR measurements. Chemical shift comparison between WT and S84D shows long-range effects on residues in the linker between helix 1 and 2, suggesting conformational changes in the linker. Mutations in the linker region restore p150Glued binding. Together, these results demonstrate for the first time phosphorylation in a disordered region affects binding at a distant site in the sequence, and is fine-tuned by changes in a disordered linker separating two structured domains. This regulatory control of dynein-dynactin interactions is key to cargo- and temporal-specific alterations in dynein transport.

GSK-3β Phosphorylation of Cytoplasmic Dynein Reduces Ndel1 Binding to Intermediate Chains and Alters Dynein Motility.

Glycogen synthase kinase 3 (GSK‐3) has been linked to regulation of kinesin‐dependent axonal transport in squid and flies, and to indirect regulation of cytoplasmic dynein. We have now found evidence for direct regulation of dynein by mammalian GSK‐3β in both neurons and non‐neuronal cells. GSK‐3β coprecipitates with and phosphorylates mammalian dynein. Phosphorylation of dynein intermediate chain (IC) reduces its interaction with Ndel1, a protein that contributes to dynein force generation. Two conserved residues, S87/T88 in IC‐1B and S88/T89 in IC‐2C, have been identified as GSK‐3 targets by both mass spectrometry and site‐directed mutagenesis. These sites are within an Ndel1‐binding domain, and mutation of both sites alters the interaction of IC's with Ndel1. Dynein motility is stimulated by (i) pharmacological and genetic inhibition of GSK‐3β, (ii) an insulin‐sensitizing agent (rosiglitazone) and (iii) manipulating an insulin response pathway that leads to GSK‐3β inactivation. Thus, our study connects a well‐characterized insulin‐signaling pathway directly to dynein stimulation via GSK‐3 inhibition.

Control of cytoplasmic dynein force production and processivity by its C-terminal domain.

Cytoplasmic dynein is a microtubule motor involved in cargo transport, nuclear migration and cell division. Despite structural conservation of the dynein motor domain from yeast to higher eukaryotes, the extensively studied S. cerevisiae dynein behaves distinctly from mammalian dyneins, which produce far less force and travel over shorter distances. However, isolated reports of yeast-like force production by mammalian dynein have called interspecies differences into question. We report that functional differences between yeast and mammalian dynein are real and attributable to a C-terminal motor element absent in yeast, which resembles a ‘cap’ over the central pore of the mammalian dynein motor domain. Removal of this cap increases the force generation of rat dynein from 1 pN to a yeast-like 6 pN and greatly increases its travel distance. Our findings identify the CT-cap as a novel regulator of dynein function.

Dynactin Functions as Both a Dynamic Tether and Brake during Dynein-Driven Motility

Dynactin is a large multi-subunit complex that is an important cofactor for cytoplasmic dynein in cellular processes including organelle trafficking and mitosis. Dynactin increases the processivity of dynein and also targets dynein to specific cellular locations. Although the role of dynactin in dynein-mediated processes is well established, the underlying mechanisms involved are unknown. Here, we use single molecule approaches to investigate the contribution of the dynactin subunit p150Glued to dynein motor function. We first characterized the motility of purified GFP-tagged mammalian dynein isolated from a knock-in mouse brain tissue (Zhang et al., 2013). Consistent with previous reports (Mallik et al., 2005; Ross et al., 2006), single molecules of dynein-GFP switch stochastically from processive to diffusive states of motion. We analyzed this motion by a novel algorithm that we developed to parse trajectories into different states and found that dynein is processive 60% of the time. To examine the activation of dynein by dynactin, we investigated the formation and co-migration of a dynein-p150Glued co-complex using dual-color TIRF microscopy. We provide direct evidence that p150Glued is sufficient to recruit and tether dynein to the microtubule and that this recruitment is concentration-dependent; p150Glued increases the on-rate and decreases the off-rate of dynein from microtubules. Single molecule imaging of motility in cell extracts demonstrates that the CAP-Gly domain of dynactin is essential for the decreased detachment rate of the dynein-dynactin complex from the microtubule and also acts as a brake to slow the dynein motor. Consistent with this important role, two neurodegenerative disease-causing mutations in the CAP-Gly domain abrogate these functions in our assays. Together, these observations support a model in which dynactin enhances the initial recruitment of dynein onto microtubules and promotes the sustained engagement of dynein with its cytoskeletal track.

The Winch Model Can Explain both Coordinated and Uncoordinated Stepping of Cytoplasmic Dynein

Cytoplasmic dynein moves processively along microtubules, but the mechanism of how its heads use the energy from ATP hydrolysis, coupled to a linker swing, to achieve directed motion, is still unclear. In this article, we present a theoretical model based on the winch mechanism in which the principal direction of the linker stroke is toward the microtubule-binding domain. When mechanically coupling two identical heads (each with postulated elastic properties and a minimal ATPase cycle), the model reproduces stepping with 8-nm steps (even though the motor itself is much larger), interhead coordination, and processivity, as reported for mammalian dyneins. Furthermore, when we loosen the elastic connection between the heads, the model still shows processive directional stepping, but it becomes uncoordinated and the stepping pattern shows a greater variability, which reproduces the properties of yeast dyneins. Their slower chemical kinetics allows processive motility and a high stall force without the need for coordination.

Traffic control: adaptor proteins guide dynein-cargo takeoff.

The precise movement of intracellular components requires active transport by molecular motors along the filamentous tracks of the cytoskeleton. While yeast cytoplasmic dynein can walk for some distance along microtubules, mammalian dynein is non‐processive. This has raised the question of how this motor can transport cargo. In two recent papers by the Carter, Bullock and Vale labs, mammalian dynein processivity has now been successfully reconstituted in vitro in the presence of adaptor proteins.

In vitro reconstitution of a highly processive recombinant human dynein complex.

Cytoplasmic dynein is an approximately 1.4 MDa multi-protein complex that transports many cellular cargoes towards the minus ends of microtubules. Several in vitro studies of mammalian dynein have suggested that individual motors are not robustly processive, raising questions about how dynein-associated cargoes can move over long distances in cells. Here, we report the production of a fully recombinant human dynein complex from a single baculovirus in insect cells. Individual complexes very rarely show directional movement in vitro. However, addition of dynactin together with the N-terminal region of the cargo adaptor BICD2 (BICD2N) gives rise to unidirectional dynein movement over remarkably long distances. Single-molecule fluorescence microscopy provides evidence that BICD2N and dynactin stimulate processivity by regulating individual dynein complexes, rather than by promoting oligomerisation of the motor complex. Negative stain electron microscopy reveals the dynein–dynactin–BICD2N complex to be well ordered, with dynactin positioned approximately along the length of the dynein tail. Collectively, our results provide insight into a novel mechanism for coordinating cargo binding with long-distance motor movement.

Dynein's C-Terminal Domain Plays a Novel Role in Regulating Force Generation

Cytoplasmic dynein is a homodimeric, minus-end-directed microtubule motor protein involved in a wide range of both low and high force requiring functions in metazoans. In contrast, yeast cytoplasmic dynein is involved in a single, nonessential function, nuclear positioning. Interestingly, whereas mammalian isoforms exhibit a stall force of 1-2 piconewton (pN), S. cerevisiae dynein stalls at 5-7 pN. In addition, in the absence of load, mammalian dyneins move faster than yeast dynein (800-1,100 nm/s vs. 100 nm/sec respectively), and, under opposing force, maintain attachment to microtubules much less tenaciously (milliseconds to seconds vs. tens of seconds, respectively). The basis for these functional differences is unknown. However, the major structural difference between mammalian and yeast dyneins is an ∼30 kDa C-terminal extension (CT) present in higher eukaryotic dyneins, but missing in yeast. To test whether the CT accounts for the differences in function, we produced recombinant rat dynein motor domains (MD) with (WT-MD) and without (ΔCT-MD) the CT region, using a baculovirus expression system. Amino-terminal glutathione S-transferase (GST) tags induced formation of a dimeric, two-headed motor. We found that, like yeast dynein, the ΔCT-MD ATPase lacks the signature vanadate inhibition characteristic of higher eukaryotic dyneins, and exhibited a strikingly higher Km(ATP). To characterize motor function, we performed single-molecule optical trapping studies. Single WT-MD stalls at ∼1 pN and detaches from microtubules after brief stalls. In sharp contrast, but similar to yeast dynein, ΔCT-MD stalls at 6 ± 1 pN (mean ± SD), with stall durations up to tens of seconds. These results identify the CT as an important new regulatory element for controlling cytoplasmic dynein mechanochemistry, perhaps gating ATP access. The CT thus appears to represent the structural basis for differences in mechanochemical function between yeast and higher eukaryotic dyneins.

The yeast dynein Dyn2-Pac11 complex is a dynein dimerization/processivity factor: structural and single-molecule characterization

Cytoplasmic dynein is the major microtubule minus end-directed motor. Although studies have probed the mechanism of the C-terminal motor domain, if and how dynein's N-terminal tail and the accessory chains it binds regulate motor activity remain to be determined. Here, we investigate the structure and function of the Saccharomyces cerevisiae dynein light (Dyn2) and intermediate (Pac11) chains in dynein heavy chain (Dyn1) movement. We present the crystal structure of a Dyn2-Pac11 complex, showing Dyn2-mediated Pac11 dimerization. To determine the molecular effects of Dyn2 and Pac11 on Dyn1 function, we generated dyn2Δ and dyn2Δpac11Δ strains and analyzed Dyn1 single-molecule motor activity. We find that the Dyn2-Pac11 complex promotes Dyn1 homodimerization and potentiates processivity. The absence of Dyn2 and Pac11 yields motors with decreased velocity, dramatically reduced processivity, increased monomerization, aggregation, and immobility as determined by single-molecule measurements. Deleting dyn2 significantly reduces Pac11-Dyn1 complex formation, yielding Dyn1 motors with activity similar to Dyn1 from the dyn2Δpac11Δ strain. Of interest, motor phenotypes resulting from Dyn2-Pac11 complex depletion bear similarity to a point mutation in the mammalian dynein N-terminal tail (Loa), highlighting this region as a conserved, regulatory motor element.