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Crystal structure of the human BTLA-HVEM complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XAU pdb entry 1XAU and chain B from 1JMA experimental model PDB 1JMA pdb entry 1XAU and chain B from 1JMA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 292 2.0 M NaFormate, 0.1 M Na Acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 3.3 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.294 α = 90 b = 167.116 β = 90 c = 148.68 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2005-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 1.00 ALS 5.0.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.8 50 99.9 0.052 0.052 13.4 3.98 15639 15639 -3 70
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.9 100 0.455 0.455 2.3 4 1543
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1XAU and chain B from 1JMA 2.8 30 -3 15599 15591 1686 99.95 0.2364 0.23649 0.23127 0.27838 0.2805 Thin shells 61.821
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 2.72 -1.88 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.267 r_dihedral_angle_3_deg 17.715 r_dihedral_angle_4_deg 12.784 r_dihedral_angle_1_deg 6.474 r_mcangle_it 2.518 r_scangle_it 2.308 r_mcbond_it 1.909 r_scbond_it 1.527 r_angle_refined_deg 1.039 r_angle_other_deg 0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.267 r_dihedral_angle_3_deg 17.715 r_dihedral_angle_4_deg 12.784 r_dihedral_angle_1_deg 6.474 r_mcangle_it 2.518 r_scangle_it 2.308 r_mcbond_it 1.909 r_scbond_it 1.527 r_angle_refined_deg 1.039 r_angle_other_deg 0.68 r_mcbond_other 0.283 r_symmetry_vdw_other 0.226 r_nbtor_refined 0.174 r_symmetry_vdw_refined 0.172 r_nbd_refined 0.171 r_nbd_other 0.164 r_xyhbond_nbd_refined 0.125 r_nbtor_other 0.08 r_chiral_restr 0.061 r_symmetry_hbond_refined 0.033 r_bond_refined_d 0.007 r_bond_other_d 0.002 r_gen_planes_refined 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3202 Nucleic Acid Atoms Solvent Atoms 4 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing