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Structure of DBL6 epsilon domain from VAR2CSA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 pH 8
Crystal Properties Matthews coefficient Solvent content 2.33 46.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.943 α = 90 b = 62.943 β = 90 c = 334.269 γ = 90
Symmetry Space Group P 43 21 2
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 CCD 2008-08-08 M MAD 2 1 x-ray 100 IMAGE PLATE MARRESEARCH M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02 2 SYNCHROTRON ESRF BEAMLINE BM14 0.97855, 0.97871, 0.91999 ESRF BM14
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 3 111.1 99.9 0.1 14.2 5.8 14481 2
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 3 3.16 100 0.6 2.9 6.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 MAD THROUGHOUT NONE 3 83.62 13680 723 99.8 0.29 0.289 0.2836 0.325 0.3245 RANDOM 94.83
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] -0.05 -0.05 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.931 r_dihedral_angle_3_deg 16.228 r_dihedral_angle_4_deg 14.001 r_scbond_it 4.781 r_dihedral_angle_1_deg 4.703 r_scangle_it 3.954 r_mcangle_it 2.235 r_mcbond_it 1.287 r_angle_refined_deg 0.893 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.931 r_dihedral_angle_3_deg 16.228 r_dihedral_angle_4_deg 14.001 r_scbond_it 4.781 r_dihedral_angle_1_deg 4.703 r_scangle_it 3.954 r_mcangle_it 2.235 r_mcbond_it 1.287 r_angle_refined_deg 0.893 r_nbtor_refined 0.294 r_symmetry_vdw_refined 0.182 r_nbd_refined 0.177 r_xyhbond_nbd_refined 0.121 r_symmetry_hbond_refined 0.081 r_chiral_restr 0.069 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4541 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling autoSHARP phasing