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- PDB-5jx1: The neck-linker and alpha 7 helix of Mus musculus KIF3A fused to EB1 -
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Open data
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Basic information
Entry | Database: PDB / ID: 5jx1 | ||||||
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Title | The neck-linker and alpha 7 helix of Mus musculus KIF3A fused to EB1 | ||||||
![]() | Chimera protein of Kinesin-like protein KIF3A and Microtubule-associated protein RP/EB family member 1 | ||||||
![]() | MOTOR PROTEIN / kinesin / coiled-coil | ||||||
Function / homology | ![]() epidermal stem cell homeostasis / positive regulation of axo-dendritic protein transport / positive regulation of establishment or maintenance of cell polarity regulating cell shape / kinesin II complex / intraciliary transport particle B binding / alpha-tubulin acetylation / Activation of SMO / Intraflagellar transport / centriole-centriole cohesion / protein localization to astral microtubule ...epidermal stem cell homeostasis / positive regulation of axo-dendritic protein transport / positive regulation of establishment or maintenance of cell polarity regulating cell shape / kinesin II complex / intraciliary transport particle B binding / alpha-tubulin acetylation / Activation of SMO / Intraflagellar transport / centriole-centriole cohesion / protein localization to astral microtubule / cortical microtubule cytoskeleton / microtubule anchoring at centrosome / mitotic spindle astral microtubule end / positive regulation of keratinocyte proliferation / Kinesins / protein localization to cell junction / cilium movement / ribbon synapse / motile cilium assembly / photoreceptor connecting cilium / protein localization to microtubule / inner ear receptor cell stereocilium organization / COPI-dependent Golgi-to-ER retrograde traffic / Hedgehog 'off' state / dorsal/ventral neural tube patterning / microtubule plus-end / cell projection membrane / positive regulation of intracellular protein transport / dentate gyrus development / attachment of mitotic spindle microtubules to kinetochore / MHC class II antigen presentation / non-motile cilium assembly / microtubule bundle formation / microtubule plus-end binding / anterograde axonal transport / neural precursor cell proliferation / dorsal/ventral pattern formation / motile cilium / determination of left/right symmetry / protein localization to centrosome / neural tube development / anterior/posterior pattern specification / microtubule organizing center / microtubule motor activity / negative regulation of microtubule polymerization / kinesin complex / smoothened signaling pathway / spectrin binding / heart looping / mitotic spindle pole / microtubule polymerization / cytoplasmic microtubule / axoneme / establishment of mitotic spindle orientation / kinesin binding / keratinocyte proliferation / cilium assembly / epidermis development / 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 / forebrain development / axon cytoplasm / 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 / centriole / AURKA Activation by TPX2 / ciliary basal body / kidney development / positive regulation of epithelial cell proliferation / RHO GTPases Activate Formins / spindle microtubule / protein localization / small GTPase binding / cilium / positive regulation of receptor-mediated endocytosis / 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 / protein transport / cell migration / heart development / microtubule binding / protein phosphatase binding / microtubule / in utero embryonic development / cadherin binding / neuron projection / cell division / focal adhesion / centrosome Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Phillips, R.K. / Rayment, I. | ||||||
![]() | ![]() 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 | ![]() | 41 KB | Display | ![]() |
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PDB format | ![]() | 28.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 410.3 KB | Display | ![]() |
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Full document | ![]() | 410.4 KB | Display | |
Data in XML | ![]() | 5.5 KB | Display | |
Data in CIF | ![]() | 6.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5jv3C ![]() 5jvmC ![]() 5jvpC ![]() 5jvrC ![]() 5jvsC ![]() 5jvuC ![]() 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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1 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 8923.008 Da / Num. of mol.: 1 Fragment: UNP P28741 residues 352-376,UNP Q15691 residues 210-257 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Gene: Kif3a, Kif3, MAPRE1 / Production host: ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 35.39 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 24% (w/v) 2-methyl-2,4-pentanediol (MPD), 10% (w/v) PEG 4000, 100 mM CaCl2, 100 mM (3-(N-morpholino)propanesulfonic acid) (MOPS) pH 7.0, 1 mM CdCl2 |
-Data collection
Diffraction | Mean temperature: 293 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: 1.67→39.82 Å / Num. obs: 14745 / % possible obs: 100 % / Redundancy: 8.6 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 50.1 |
Reflection shell | Resolution: 1.67→1.8 Å / Redundancy: 5.9 % / Rmerge(I) obs: 0.295 / Mean I/σ(I) obs: 12.4 / % possible all: 86.2 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1YIB Resolution: 1.67→39.82 Å / SU ML: 0.18 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 22.85 / 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: 1.67→39.82 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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