+Open data
-Basic information
Entry | Database: PDB / ID: 1xau | ||||||
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Title | STRUCTURE OF THE BTLA ECTODOMAIN | ||||||
Components | B- and T-lymphocyte attenuator | ||||||
Keywords | IMMUNE SYSTEM / IG DOMAIN / BETA SANDWICH / Structural Genomics / PSI / Protein Structure Initiative / Midwest Center for Structural Genomics / MCSG | ||||||
Function / homology | Function and homology information Costimulation by the CD28 family / negative regulation of alpha-beta T cell proliferation / immune response-regulating cell surface receptor signaling pathway / negative regulation of B cell proliferation / plasma membrane => GO:0005886 / negative regulation of T cell proliferation / signaling receptor activity / adaptive immune response / cell surface receptor signaling pathway / external side of plasma membrane / plasma membrane Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.8 Å | ||||||
Authors | Nelson, C.A. / Fremont, D.H. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: J.Immunol. / Year: 2008 Title: Structural determinants of herpesvirus entry mediator recognition by murine B and T lymphocyte attenuator. Authors: Nelson, C.A. / Fremont, M.D. / Sedy, J.R. / Norris, P.S. / Ware, C.F. / Murphy, K.M. / Fremont, D.H. | ||||||
History |
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Remark 999 | SEQUENCE GB 31880025 is for the mouse strain "129/SvEv" while the deposited sequence is from the ...SEQUENCE GB 31880025 is for the mouse strain "129/SvEv" while the deposited sequence is from the mouse strain BALB/c. The BALB/c sequence has not yet been submitted to genbank. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1xau.cif.gz | 37.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1xau.ent.gz | 28.1 KB | Display | PDB format |
PDBx/mmJSON format | 1xau.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1xau_validation.pdf.gz | 430.1 KB | Display | wwPDB validaton report |
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Full document | 1xau_full_validation.pdf.gz | 434.4 KB | Display | |
Data in XML | 1xau_validation.xml.gz | 10 KB | Display | |
Data in CIF | 1xau_validation.cif.gz | 14.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xa/1xau ftp://data.pdbj.org/pub/pdb/validation_reports/xa/1xau | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 14147.902 Da / Num. of mol.: 1 / Fragment: BTLA ectodomain (residues 30-150) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: BALB/c BTLA / Plasmid: pET-28 (EMD Biosciences) / Production host: Escherichia coli (E. coli) Strain (production host): BL21(DE3)RIL codon (+) E.coli cells (Stratagene) References: UniProt: Q7TSA3 | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.2 Å3/Da / Density % sol: 44 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, hanging drop / pH: 5.8 Details: 10mM Cadmium Chloride, 100mM Citric Acid/NaOH, 220mM Ammonium Acetate, 26% PEG 4000, 10mM Trimethylamine-HCl, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K |
-Data collection
Diffraction | Mean temperature: 110 K | |||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 4.2.2 / Wavelength: 1.54978, 2.06637 | |||||||||
Detector | Type: NOIR-1 / Detector: CCD / Date: Aug 5, 2004 | |||||||||
Radiation | Monochromator: SAGITALLY FOCUSED / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
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Reflection | Resolution: 1.8→50 Å / Num. obs: 11536 / % possible obs: 96.5 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 3.7 % / Biso Wilson estimate: 18.9 Å2 / Rmerge(I) obs: 0.056 / Net I/σ(I): 14.4 | |||||||||
Reflection shell | Resolution: 1.83→1.92 Å / Redundancy: 2.46 % / Rmerge(I) obs: 0.185 / Mean I/σ(I) obs: 4.2 / Num. unique all: 1086 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.8→28.85 Å / Rfactor Rfree error: 0.011 / Data cutoff high absF: 997841.34 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 50.7192 Å2 / ksol: 0.350394 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 29.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.8→28.85 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.8→1.86 Å / Rfactor Rfree error: 0.037 / Total num. of bins used: 6
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Xplor file |
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