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Open data
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Basic information
Entry | Database: PDB / ID: 4l4t | ||||||
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Title | Structure of human MAIT TCR in complex with human MR1-6-FP | ||||||
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Function / homology | ![]() positive regulation of T cell mediated cytotoxicity directed against tumor cell target / antigen processing and presentation of exogenous antigen / MHC class I receptor activity / alpha-beta T cell receptor complex / Translocation of ZAP-70 to Immunological synapse / Phosphorylation of CD3 and TCR zeta chains / alpha-beta T cell activation / Generation of second messenger molecules / PD-1 signaling / immunoglobulin complex, circulating ...positive regulation of T cell mediated cytotoxicity directed against tumor cell target / antigen processing and presentation of exogenous antigen / MHC class I receptor activity / alpha-beta T cell receptor complex / Translocation of ZAP-70 to Immunological synapse / Phosphorylation of CD3 and TCR zeta chains / alpha-beta T cell activation / Generation of second messenger molecules / PD-1 signaling / immunoglobulin complex, circulating / immunoglobulin receptor binding / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Patel, O. / Kjer-Nielsen, L. / Le Nours, J. / Eckle, S.B.G. / Birkinshaw, R.W. / Beddoe, T. / Corbett, A.J. / Liu, L. / Miles, J.J. / Meehan, B. ...Patel, O. / Kjer-Nielsen, L. / Le Nours, J. / Eckle, S.B.G. / Birkinshaw, R.W. / Beddoe, T. / Corbett, A.J. / Liu, L. / Miles, J.J. / Meehan, B. / Reantragoon, R. / Sandoval-Romero, M.L. / Sullivan, L.C. / Brooks, A.G. / Chen, Z. / Fairlie, D.P. / McCluskey, J. / Rossjohn, J. | ||||||
![]() | ![]() Title: Recognition of vitamin B metabolites by mucosal-associated invariant T cells. Authors: Patel, O. / Kjer-Nielsen, L. / Le Nours, J. / Eckle, S.B. / Birkinshaw, R. / Beddoe, T. / Corbett, A.J. / Liu, L. / Miles, J.J. / Meehan, B. / Reantragoon, R. / Sandoval-Romero, M.L. / ...Authors: Patel, O. / Kjer-Nielsen, L. / Le Nours, J. / Eckle, S.B. / Birkinshaw, R. / Beddoe, T. / Corbett, A.J. / Liu, L. / Miles, J.J. / Meehan, B. / Reantragoon, R. / Sandoval-Romero, M.L. / Sullivan, L.C. / Brooks, A.G. / Chen, Z. / Fairlie, D.P. / McCluskey, J. / Rossjohn, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 355 KB | Display | ![]() |
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PDB format | ![]() | 284.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 4l4vC ![]() 4gupS 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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Unit cell |
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Components
-Protein , 2 types, 4 molecules ACBF
#1: Protein | Mass: 31711.670 Da / Num. of mol.: 2 / Fragment: extracellular domain, residues 23-292 / Mutation: C261S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() #2: Protein | ![]() Mass: 11748.160 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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-MAIT T-cell receptor ... , 2 types, 4 molecules DGEH
#3: Protein | Mass: 22650.072 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() #4: Protein | Mass: 27546.562 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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-Non-polymers , 2 types, 1295 molecules ![](data/chem/img/6FP.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | #6: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.79 Å3/Da / Density % sol: 55.93 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6 Details: pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. all: 139624 / Num. obs: 139624 / % possible obs: 99.9 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 5.1 % / Biso Wilson estimate: 27.16 Å2 / Rmerge(I) obs: 0.121 / Net I/σ(I): 10.5 |
Reflection shell | Resolution: 2→2.11 Å / Redundancy: 5.1 % / Rmerge(I) obs: 0.747 / Mean I/σ(I) obs: 2.1 / Num. unique all: 20300 / % possible all: 99.5 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: PDB entry 4GUP Resolution: 2→49.38 Å / Cor.coef. Fo:Fc: 0.9386 / Cor.coef. Fo:Fc free: 0.9113 / SU R Cruickshank DPI: 0.151 / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 29.72 Å2
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Refine analyze | Luzzati coordinate error obs: 0.225 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→49.38 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.05 Å / Total num. of bins used: 20
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