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- PDB-1cd8: CRYSTAL STRUCTURE OF A SOLUBLE FORM OF THE HUMAN T CELL CO-RECEPT... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1cd8 | ||||||
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Title | CRYSTAL STRUCTURE OF A SOLUBLE FORM OF THE HUMAN T CELL CO-RECEPTOR CD8 AT 2.6 ANGSTROMS RESOLUTION | ||||||
![]() | T CELL CORECEPTOR CD8 | ||||||
![]() | SURFACE GLYCOPROTEIN | ||||||
Function / homology | ![]() cytotoxic T cell differentiation / MHC class I protein complex binding / T cell mediated immunity / T cell receptor complex / MHC class I protein binding / plasma membrane raft / antigen processing and presentation / coreceptor activity / cell surface receptor protein tyrosine kinase signaling pathway / T cell activation ...cytotoxic T cell differentiation / MHC class I protein complex binding / T cell mediated immunity / T cell receptor complex / MHC class I protein binding / plasma membrane raft / antigen processing and presentation / coreceptor activity / cell surface receptor protein tyrosine kinase signaling pathway / T cell activation / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / T cell receptor signaling pathway / adaptive immune response / cell surface receptor signaling pathway / receptor complex / immune response / external side of plasma membrane / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Leahy, D.J. / Axel, R. / Hendrickson, W.A. | ||||||
![]() | ![]() Title: Crystal structure of a soluble form of the human T cell coreceptor CD8 at 2.6 A resolution. Authors: Leahy, D.J. / Axel, R. / Hendrickson, W.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 39.6 KB | Display | ![]() |
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PDB format | ![]() | 27.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 424.2 KB | Display | ![]() |
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Full document | ![]() | 424.8 KB | Display | |
Data in XML | ![]() | 7.2 KB | Display | |
Data in CIF | ![]() | 8.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Atom site foot note | 1: RESIDUE PRO 7 IS A CIS PROLINE. |
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Components
#1: Protein | Mass: 12849.552 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() |
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#2: Chemical | ChemComp-SO4 / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.2 Å3/Da / Density % sol: 61.54 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.6 Å / Lowest resolution: 30 Å / Num. obs: 4347 / Observed criterion σ(F): 2 / Num. measured all: 19913 / Rmerge(I) obs: 0.105 |
Reflection shell | *PLUS Highest resolution: 2.6 Å / Lowest resolution: 2.69 Å / % possible obs: 44 % / Num. unique obs: 226 / Num. measured obs: 597 / Rmerge(I) obs: 0.323 |
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Processing
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Refinement | Resolution: 2.6→8 Å / σ(F): 0 Details: THREE SHORT LOOP REGIONS HAVE POOR ELECTRON DENSITY AND AVERAGE B-FACTORS ABOVE 50A**2: (I) SER 27-SER 31, (II) GLN 54-LYS 56, (III) ARG 40-ALA 43. IN THESE REGIONS SUFFICIENT MAIN-CHAIN ...Details: THREE SHORT LOOP REGIONS HAVE POOR ELECTRON DENSITY AND AVERAGE B-FACTORS ABOVE 50A**2: (I) SER 27-SER 31, (II) GLN 54-LYS 56, (III) ARG 40-ALA 43. IN THESE REGIONS SUFFICIENT MAIN-CHAIN DENSITY IS PRESENT TO PROVIDE CONFIDENCE THAT THE COURSE OF THE MAIN-CHAIN IS GENERALLY CORRECT, BUT THE EXACT MAIN-CHAIN TORSION ANGLES AND SIDE-CHAIN POSITIONS ARE NOT WELL DEFINED.
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Refinement step | Cycle: LAST / Resolution: 2.6→8 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.6 Å / Lowest resolution: 8 Å / Num. reflection all: 18872 / σ(F): 0 / Rfactor all: 0.192 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 3.1 |