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- PDB-6inn: Crystal structure of the CysR-CTLD3 fragment of human MR at acidi... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6inn | |||||||||
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Title | Crystal structure of the CysR-CTLD3 fragment of human MR at acidic pH (pH 5.6) | |||||||||
![]() | Macrophage mannose receptor 1 | |||||||||
![]() | IMMUNE SYSTEM / CD206 / mannose receptor family / pH-dependent / conformational change / scavenger receptor | |||||||||
Function / homology | ![]() cargo receptor activity / Cross-presentation of soluble exogenous antigens (endosomes) / D-mannose binding / cellular response to interleukin-4 / receptor-mediated endocytosis / cellular response to type II interferon / transmembrane signaling receptor activity / Modulation by Mtb of host immune system / virus receptor activity / signaling receptor activity ...cargo receptor activity / Cross-presentation of soluble exogenous antigens (endosomes) / D-mannose binding / cellular response to interleukin-4 / receptor-mediated endocytosis / cellular response to type II interferon / transmembrane signaling receptor activity / Modulation by Mtb of host immune system / virus receptor activity / signaling receptor activity / cellular response to lipopolysaccharide / endosome membrane / cell surface / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Hu, Z. / He, Y. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural basis of the pH-dependent conformational change of the N-terminal region of human mannose receptor/CD206. Authors: Hu, Z. / Wang, Y. / Cheng, C. / He, Y. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 478.1 KB | Display | ![]() |
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PDB format | ![]() | 395.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 465.2 KB | Display | ![]() |
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Full document | ![]() | 482.6 KB | Display | |
Data in XML | ![]() | 77.2 KB | Display | |
Data in CIF | ![]() | 102.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6inoC ![]() 6inuC ![]() 6invC ![]() 6ioeC ![]() 5xtsS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 70961.320 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Details: SF file contains Friedel pairs. / Source: (gene. exp.) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 6.54 Å3/Da / Density % sol: 81.2 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, hanging drop Details: 0.5 M ammonium sulfate, 0.1 M sodium citrate tribasic dihydrate (pH 5.6), 1.0 M lithium sulfate monohydrate |
-Data collection
Diffraction | Mean temperature: 80 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Sep 12, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 3→30 Å / Num. obs: 266852 / % possible obs: 98.4 % / Redundancy: 7.6 % / Rmerge(I) obs: 0.184 / Net I/σ(I): 7.42 |
Reflection shell | Resolution: 3→3 Å / Rmerge(I) obs: 0.473 / Num. unique obs: 13195 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5XTS Resolution: 3.001→29.988 Å / SU ML: 0.55 / Cross valid method: THROUGHOUT / σ(F): 1.41 / Phase error: 28.62
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.001→29.988 Å
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Refine LS restraints |
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LS refinement shell |
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