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Open data
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Basic information
Entry | Database: PDB / ID: 4bfe | ||||||
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Title | Structure of the extracellular portion of mouse CD200RLa | ||||||
![]() | CELL SURFACE GLYCOPROTEIN CD200 RECEPTOR 4 | ||||||
![]() | IMMUNE SYSTEM / PAIRED RECEPTOR / IG DOMAINS / VIRAL MIMICRY / LEUKAEMIA | ||||||
Function / homology | ![]() regulation of neuroinflammatory response / signaling receptor activity / membrane => GO:0016020 / external side of plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hatherley, D. / Lea, S.M. / Johnson, S. / Barclay, A.N. | ||||||
![]() | ![]() Title: Structures of Cd200/Cd200 Receptor Family and Implications for Topology, Regulation, and Evolution Authors: Hatherley, D. / Lea, S.M. / Johnson, S. / Barclay, A.N. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 137.3 KB | Display | ![]() |
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PDB format | ![]() | 113.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 502.8 KB | Display | ![]() |
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Full document | ![]() | 507.3 KB | Display | |
Data in XML | ![]() | 30.6 KB | Display | |
Data in CIF | ![]() | 44.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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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3 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Noncrystallographic symmetry (NCS) | NCS oper:
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Components
-Protein / Sugars , 2 types, 18 molecules ABC![](data/chem/img/NAG.gif)
![](data/chem/img/NAG.gif)
#1: Protein | Mass: 24337.213 Da / Num. of mol.: 3 / Fragment: EXTRACELLULAR DOMAIN, RESIDUES 26-238 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Sugar | ChemComp-NAG / |
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-Non-polymers , 4 types, 628 molecules ![](data/chem/img/CYS.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | #4: Chemical | ChemComp-SO4 / #5: Chemical | #6: Water | ChemComp-HOH / | |
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-Details
Sequence details | NUMBERING IN THE PDB IS BASED ON THE START OF THE MATURE SEQUENCE, AS DETERMINED BY N-TERMINAL ...NUMBERING IN THE PDB IS BASED ON THE START OF THE MATURE SEQUENCE, AS DETERMINED |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.72 Å3/Da / Density % sol: 67 % / Description: NONE |
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Crystal grow | pH: 6.5 Details: 2.0M AMMONIUM SULFATE, 0.1M SODIUM CACODYLATE, 0.2M SODIUM CHLORIDE, pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Feb 7, 2010 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9762 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→168.02 Å / Num. obs: 42242 / % possible obs: 98.4 % / Observed criterion σ(I): 2 / Redundancy: 3.6 % / Biso Wilson estimate: 56.43 Å2 / Rmerge(I) obs: 0.07 / Net I/σ(I): 13 |
Reflection shell | Resolution: 2.5→2.63 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.49 / Mean I/σ(I) obs: 2.2 / % possible all: 99.7 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 2.5→15 Å / Cor.coef. Fo:Fc: 0.9526 / Cor.coef. Fo:Fc free: 0.9332 / SU R Cruickshank DPI: 0.215 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.246 / SU Rfree Blow DPI: 0.192 / SU Rfree Cruickshank DPI: 0.182
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Displacement parameters | Biso mean: 48.52 Å2
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Refine analyze | Luzzati coordinate error obs: 0.274 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→15 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.5→2.56 Å / Total num. of bins used: 20
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