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Crystal structure of murine Ngb under Xe pressure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q1F PDB ENTRY 1Q1F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 1.6M ammonium sulfate, 0.1M MES, pH6.5, 10% dioxane, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.43 49.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.83 α = 90 b = 88.83 β = 90 c = 110.926 γ = 120
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 2007-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.8 25.6 100 0.06 10.8 15838 15825
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.9 99.92 0.38 5.6 10.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1Q1F 1.8 25.6 15825 15036 789 99.92 0.204 0.18695 0.18561 0.185 0.21112 0.2094 RANDOM 22.013
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] -0.26 -0.13 -0.26 0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.209 r_dihedral_angle_4_deg 18.329 r_dihedral_angle_3_deg 13.023 r_dihedral_angle_1_deg 4.432 r_scangle_it 3.289 r_scbond_it 2.203 r_mcangle_it 1.594 r_angle_refined_deg 1.332 r_mcbond_it 0.859 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.209 r_dihedral_angle_4_deg 18.329 r_dihedral_angle_3_deg 13.023 r_dihedral_angle_1_deg 4.432 r_scangle_it 3.289 r_scbond_it 2.203 r_mcangle_it 1.594 r_angle_refined_deg 1.332 r_mcbond_it 0.859 r_nbtor_refined 0.297 r_xyhbond_nbd_refined 0.226 r_nbd_refined 0.208 r_symmetry_hbond_refined 0.177 r_symmetry_vdw_refined 0.173 r_chiral_restr 0.097 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1211 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 97
Software Software Software Name Purpose MxCuBE data collection REFMAC refinement DENZO data reduction SCALEPACK data scaling REFMAC phasing