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- PDB-4x83: Crystal structure of Dscam1 isoform 7.44, N-terminal four Ig domains -
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Open data
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Basic information
Entry | Database: PDB / ID: 4x83 | |||||||||
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Title | Crystal structure of Dscam1 isoform 7.44, N-terminal four Ig domains | |||||||||
![]() | Down syndrome cell adhesion molecule, isoform 7.44 | |||||||||
![]() | CELL ADHESION / Ig fold | |||||||||
Function / homology | ![]() detection of molecule of bacterial origin / mushroom body development / central nervous system morphogenesis / detection of mechanical stimulus involved in sensory perception of touch / ventral cord development / dendrite self-avoidance / axon extension involved in axon guidance / axon guidance receptor activity / peripheral nervous system development / axonal fasciculation ...detection of molecule of bacterial origin / mushroom body development / central nervous system morphogenesis / detection of mechanical stimulus involved in sensory perception of touch / ventral cord development / dendrite self-avoidance / axon extension involved in axon guidance / axon guidance receptor activity / peripheral nervous system development / axonal fasciculation / regulation of axonogenesis / regulation of dendrite morphogenesis / plasma membrane => GO:0005886 / neuron development / phagocytosis / antigen binding / axon guidance / cell adhesion / neuron projection / axon / neuronal cell body / dendrite / protein homodimerization activity / identical protein binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Chen, Q. / Yu, Y. / Li, S.A. / Cheng, L. | |||||||||
![]() | ![]() Title: Structural basis of Dscam1 homodimerization: Insights into context constraint for protein recognition Authors: Li, S.A. / Cheng, L. / Yu, Y. / Chen, Q. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 609.6 KB | Display | ![]() |
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PDB format | ![]() | 507.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 4wvrC ![]() 4x5lC ![]() 4x8xC ![]() 4x9bC ![]() 4x9fC ![]() 4x9gC ![]() 4x9hC ![]() 4x9iC ![]() 4xb7C ![]() 4xb8C ![]() 4xhqC ![]() 3dmkS 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 43155.711 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Polysaccharide | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose #3: Sugar | #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.91 Å3/Da / Density % sol: 57.74 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop Details: 0.2M ammonium chloride 17%(w/v) polyethylene glycol 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 20, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97915 Å / Relative weight: 1 |
Reflection | Resolution: 1.902→49.444 Å / Num. obs: 148198 / % possible obs: 93.55 % / Redundancy: 2.16 % / Net I/σ(I): 9.64 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3DMK Resolution: 1.902→49.444 Å / SU ML: 0.23 / Cross valid method: FREE R-VALUE / σ(F): 1.98 / Phase error: 26.59 / 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: 1.902→49.444 Å
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Refine LS restraints |
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LS refinement shell |
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