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Open data
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Basic information
Entry | Database: PDB / ID: 5jvm | |||||||||
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Title | The neck-linker and alpha 7 helix of Mus musculus KIF3C | |||||||||
![]() | Chimera protein of Kinesin-like protein KIF3C and Microtubule-associated protein RP/EB family member 1 | |||||||||
![]() | MOTOR PROTEIN / kinesin / coiled-coil | |||||||||
Function / homology | ![]() microtubule motor activity => GO:0003777 / Intraflagellar transport / protein localization to astral microtubule / cortical microtubule cytoskeleton / mitotic spindle astral microtubule end / neuronal ribonucleoprotein granule / Kinesins / protein localization to microtubule / COPI-dependent Golgi-to-ER retrograde traffic / organelle transport along microtubule ...microtubule motor activity => GO:0003777 / Intraflagellar transport / protein localization to astral microtubule / cortical microtubule cytoskeleton / mitotic spindle astral microtubule end / neuronal ribonucleoprotein granule / Kinesins / protein localization to microtubule / COPI-dependent Golgi-to-ER retrograde traffic / organelle transport along microtubule / microtubule plus-end / cell projection membrane / attachment of mitotic spindle microtubules to kinetochore / MHC class II antigen presentation / non-motile cilium assembly / microtubule bundle formation / microtubule plus-end binding / protein localization to centrosome / microtubule organizing center / microtubule motor activity / negative regulation of microtubule polymerization / kinesin complex / microtubule-based movement / mitotic spindle pole / microtubule polymerization / cytoplasmic microtubule / kinesin binding / establishment of mitotic spindle orientation / regulation of microtubule polymerization or depolymerization / spindle assembly / spindle midzone / Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / Loss of Nlp from mitotic centrosomes / Loss of proteins required for interphase microtubule organization from the centrosome / Recruitment of mitotic centrosome proteins and complexes / positive regulation of microtubule polymerization / Recruitment of NuMA to mitotic centrosomes / Resolution of Sister Chromatid Cohesion / Anchoring of the basal body to the plasma membrane / AURKA Activation by TPX2 / ciliary basal body / RHO GTPases Activate Formins / protein localization / positive regulation of neuron projection development / Separation of Sister Chromatids / The role of GTSE1 in G2/M progression after G2 checkpoint / microtubule cytoskeleton / Regulation of PLK1 Activity at G2/M Transition / cell migration / synaptic vesicle / growth cone / microtubule binding / microtubule / cadherin binding / cell division / axon / focal adhesion / centrosome / neuronal cell body / dendrite / protein kinase binding / Golgi apparatus / ATP hydrolysis activity / RNA binding / ATP binding / identical protein binding / membrane / cytosol Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Phillips, R.K. / Rayment, I. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Family-specific Kinesin Structures Reveal Neck-linker Length Based on Initiation of the Coiled-coil. Authors: Phillips, R.K. / Peter, L.G. / Gilbert, S.P. / Rayment, I. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 88.5 KB | Display | ![]() |
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PDB format | ![]() | 67.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 425.5 KB | Display | ![]() |
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Full document | ![]() | 426 KB | Display | |
Data in XML | ![]() | 11.4 KB | Display | |
Data in CIF | ![]() | 16.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5jv3C ![]() 5jvpC ![]() 5jvrC ![]() 5jvsC ![]() 5jvuC ![]() 5jx1C ![]() 1yibS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 9638.826 Da / Num. of mol.: 2 Fragment: UNP O35066 residues 374-402,UNP Q15691 residues 207-257 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Gene: Kif3c, MAPRE1 / Production host: ![]() ![]() #2: Chemical | ChemComp-MG / | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.99 Å3/Da / Density % sol: 58.88 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 9 Details: 30% (w/v) pentaerythritol ethoxylate (PEE) 797, 1.5% (w/v) ethylene glycol monoethylether, 400 mM MgCl2, 100 mM bis-tris propane pH 9.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Dec 13, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97924 Å / Relative weight: 1 |
Reflection | Resolution: 1.5667→37.004 Å / Num. obs: 44738 / % possible obs: 98 % / Redundancy: 7.1 % / Rmerge(I) obs: 0.073 / Net I/σ(I): 21.7 |
Reflection shell | Resolution: 1.5667→1.62 Å / Redundancy: 3 % / Rmerge(I) obs: 0.595 / Mean I/σ(I) obs: 1.6 / Num. measured obs: 2513 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1YIB Resolution: 1.567→37.004 Å / SU ML: 0.15 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 22.42 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.567→37.004 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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