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Open data
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Basic information
Entry | Database: PDB / ID: 8kb0 | ||||||
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Title | Crystal structure of 01JD-AEAIIVAMV | ||||||
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![]() | IMMUNE SYSTEM / major histocompatibility complex / Anpl-UAA | ||||||
Function / homology | ![]() antigen processing and presentation of peptide antigen via MHC class I / MHC class I protein complex / extracellular region Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Tang, Z. / Zhang, N. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The impact of micropolymorphism in Anpl-UAA on structural stability and peptide presentation. Authors: Tang, Z. / Wang, S. / Du, L. / Hu, D. / Chen, X. / Zheng, H. / Ding, H. / Chen, S. / Zhang, L. / Zhang, N. | ||||||
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 168.1 KB | Display | ![]() |
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PDB format | ![]() | 132.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 467.2 KB | Display | ![]() |
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Full document | ![]() | 480.3 KB | Display | |
Data in XML | ![]() | 30.8 KB | Display | |
Data in CIF | ![]() | 43.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8kb1C C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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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: 31486.705 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() #2: Protein | Mass: 11863.242 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() References: UniProt: Q14U75 #3: Protein/peptide | Mass: 916.135 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 51.67 % |
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Crystal grow | Temperature: 277.15 K / Method: lipidic cubic phase Details: 0.2M Ammonium acetate 0.1M HEPES pH 7.5 25% w/v PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Jun 9, 2023 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.48→71.14 Å / Num. obs: 30537 / % possible obs: 92.7 % / Redundancy: 13 % / CC1/2: 0.999 / Rmerge(I) obs: 0.132 / Rpim(I) all: 0.038 / Rrim(I) all: 0.138 / Χ2: 0.96 / Net I/σ(I): 14.6 / Num. measured all: 398097 |
Reflection shell | Resolution: 2.48→2.61 Å / % possible obs: 100 % / Redundancy: 13.6 % / Rmerge(I) obs: 1.159 / Num. measured all: 64311 / Num. unique obs: 4712 / CC1/2: 0.888 / Rpim(I) all: 0.324 / Rrim(I) all: 1.204 / Χ2: 0.9 / Net I/σ(I) obs: 2.5 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.48→19.99 Å
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Refine LS restraints |
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LS refinement shell |
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