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- EMDB-19176: Microtubule-associated kinesin-1 tail complex bound to AMPPNP, tw... -
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Basic information
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Title | Microtubule-associated kinesin-1 tail complex bound to AMPPNP, two-headed state | ||||||||||||
![]() | Main map after focussed refinement on tubulin and kinesin | ||||||||||||
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![]() | Kinesin autoinhibition motor microtubules mechanochemistry intracellular transport / MOTOR PROTEIN | ||||||||||||
Function / homology | ![]() regulation of modification of synapse structure, modulating synaptic transmission / cytolytic granule membrane / plus-end-directed vesicle transport along microtubule / cytoplasm organization / anterograde dendritic transport of neurotransmitter receptor complex / anterograde neuronal dense core vesicle transport / mitocytosis / retrograde neuronal dense core vesicle transport / anterograde axonal protein transport / lysosome localization ...regulation of modification of synapse structure, modulating synaptic transmission / cytolytic granule membrane / plus-end-directed vesicle transport along microtubule / cytoplasm organization / anterograde dendritic transport of neurotransmitter receptor complex / anterograde neuronal dense core vesicle transport / mitocytosis / retrograde neuronal dense core vesicle transport / anterograde axonal protein transport / lysosome localization / positive regulation of potassium ion transport / vesicle transport along microtubule / plus-end-directed microtubule motor activity / Microtubule-dependent trafficking of connexons from Golgi to the plasma membrane / Resolution of Sister Chromatid Cohesion / Hedgehog 'off' state / Cilium Assembly / Intraflagellar transport / COPI-dependent Golgi-to-ER retrograde traffic / Mitotic Prometaphase / Carboxyterminal post-translational modifications of tubulin / RHOH GTPase cycle / EML4 and NUDC in mitotic spindle formation / Sealing of the nuclear envelope (NE) by ESCRT-III / Kinesins / PKR-mediated signaling / Separation of Sister Chromatids / The role of GTSE1 in G2/M progression after G2 checkpoint / Aggrephagy / RHO GTPases activate KTN1 / Kinesins / RHO GTPases activate IQGAPs / RHO GTPases Activate Formins / kinesin complex / HSP90 chaperone cycle for steroid hormone receptors (SHR) in the presence of ligand / MHC class II antigen presentation / Recruitment of NuMA to mitotic centrosomes / microtubule motor activity / COPI-mediated anterograde transport / centrosome localization / mitochondrion transport along microtubule / COPI-dependent Golgi-to-ER retrograde traffic / ciliary rootlet / microtubule-based movement / stress granule disassembly / natural killer cell mediated cytotoxicity / synaptic vesicle transport / Insulin processing / postsynaptic cytosol / phagocytic vesicle / axon cytoplasm / MHC class II antigen presentation / dendrite cytoplasm / axon guidance / regulation of membrane potential / positive regulation of synaptic transmission, GABAergic / positive regulation of protein localization to plasma membrane / structural constituent of cytoskeleton / cellular response to type II interferon / centriolar satellite / microtubule cytoskeleton organization / neuron migration / Signaling by ALK fusions and activated point mutants / mitotic cell cycle / microtubule cytoskeleton / microtubule binding / nuclear membrane / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / vesicle / microtubule / cadherin binding / GTPase activity / protein-containing complex binding / GTP binding / perinuclear region of cytoplasm / ATP hydrolysis activity / mitochondrion / ATP binding / metal ion binding / identical protein binding / membrane / cytosol / cytoplasm Similarity search - Function | ||||||||||||
Biological species | ![]() ![]() ![]() | ||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.0 Å | ||||||||||||
![]() | Atherton J / Chegkazi MS / Steiner RA | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Microtubule association induces a Mg-free apo-like ADP pre-release conformation in kinesin-1 that is unaffected by its autoinhibitory tail. Authors: J Atherton / M S Chegkazi / M Leusciatti / M Di Palma / E Peirano / L S Pozzer / M V A Meli / S Pasqualato / T Foran / G Morra / R A Steiner / ![]() ![]() Abstract: Kinesin-1 is a processive dimeric ATP-driven motor that transports vital intracellular cargos along microtubules (MTs). If not engaged in active transport, kinesin-1 limits futile ATP hydrolysis by ...Kinesin-1 is a processive dimeric ATP-driven motor that transports vital intracellular cargos along microtubules (MTs). If not engaged in active transport, kinesin-1 limits futile ATP hydrolysis by adopting a compact autoinhibited conformation that involves an interaction between its C-terminal tail and the N-terminal motor domains. Here, using a chimeric kinesin-1 that fuses the N-terminal motor region to the tail and a tail variant unable to interact with the motors, we employ cryo-EM to investigate elements of the MT-associated mechanochemical cycle. We describe a missing structure for the proposed two-step allosteric mechanism of ADP release, the ATPase rate limiting step. It shows that MT association remodels the hydrogen bond network at the nucleotide binding site triggering removal of the Mg ion from the Mg-ADP complex. This results in a strong MT-binding apo-like state before ADP dissociation, which molecular dynamics simulations indicate is mediated by loop 9 dynamics. We further demonstrate that tail association does not directly affect this mechanism, nor the adoption of the ATP hydrolysis-competent conformation, nor neck linker docking/undocking, even when zippering the two motor domains. We propose a revised mechanism for tail-dependent kinesin-1 autoinhibition and suggest a possible explanation for its characteristic pausing behavior on MTs. #1: ![]() Title: Microtubule association induces a Mg-free apo-like ADP pre-release conformation in kinesin-1 that is unaffected by its autoinhibitory tail Authors: Atherton J / Chegkazi MS / Peirano E / Pozzer LS / Foran T / Steiner RA | ||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 39.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 29.9 KB 29.9 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 8.5 KB | Display | ![]() |
Images | ![]() | 86 KB | ||
Filedesc metadata | ![]() | 8.4 KB | ||
Others | ![]() ![]() ![]() | 39.8 MB 40.3 MB 40.3 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 803.8 KB | Display | ![]() |
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Full document | ![]() | 803.3 KB | Display | |
Data in XML | ![]() | 13.9 KB | Display | |
Data in CIF | ![]() | 19.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8rhhMC ![]() 8rhbC ![]() 8rikC ![]() 8rizC ![]() 9gnqC C: citing same article ( M: atomic model generated by this map |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | Main map after focussed refinement on tubulin and kinesin | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.083 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Additional map: Main map after focussed refinement on kinesin
File | emd_19176_additional_1.map | ||||||||||||
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Annotation | Main map after focussed refinement on kinesin | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map 2 after focussed refinement on tubulin and kinesin
File | emd_19176_half_map_1.map | ||||||||||||
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Annotation | Half map 2 after focussed refinement on tubulin and kinesin | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map 1 after focussed refinement on tubulin and kinesin
File | emd_19176_half_map_2.map | ||||||||||||
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Annotation | Half map 1 after focussed refinement on tubulin and kinesin | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
+Entire : 13pf microtubule bound to Kif5bMoNeIAK in the presence of AMPPNP ...
+Supramolecule #1: 13pf microtubule bound to Kif5bMoNeIAK in the presence of AMPPNP ...
+Supramolecule #2: Kinesin-1 heavy chain
+Supramolecule #3: 13pf microtubule
+Macromolecule #1: Tubulin beta chain
+Macromolecule #2: Kinesin-1 heavy chain
+Macromolecule #3: Tubulin alpha-1B chain
+Macromolecule #4: GUANOSINE-5'-DIPHOSPHATE
+Macromolecule #5: TAXOL
+Macromolecule #6: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
+Macromolecule #7: MAGNESIUM ION
+Macromolecule #8: GUANOSINE-5'-TRIPHOSPHATE
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | filament |
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Sample preparation
Concentration | 1.16 mg/mL |
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Buffer | pH: 6.8 / Details: BRB80 + 5mM AMPPNP |
Grid | Model: C-flat-2/2 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 80 % / Instrument: LEICA EM GP |
Details | Kinesin 1mg/ml Microtubules at 0.16mg/ml |
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Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 52.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 0.7000000000000001 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Details | Phenix Real Space refine and Coot |
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Refinement | Space: REAL / Protocol: FLEXIBLE FIT |
Output model | ![]() PDB-8rhh: |