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Thaumatin crystals grown from drops
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3N02 Coordinate for the structure of the crystals grown in loop (PDB code: 3N02).
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.3 295 0.9M Sodium/potassium tartrate, 0.1M HEPES (pH 7.3), 15% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.84 56.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.9 α = 90 b = 57.9 β = 90 c = 150.24 γ = 90
Symmetry Space Group P 41 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 QUANTUM 315r 2009-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 0.9795 SSRL BL7-1
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 1.5 29 99.4 0.04 26.3 4.7 41768 41768 -3
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 1.5 1.54 99.9 0.202 7.7 4.6 3042
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 Rigid body with the coordinate for the loop method THROUGHOUT Coordinate for the structure of the crystals grown in loop (PDB code: 3N02). 1.5 27.68 39637 2083 99.55 0.14709 0.14624 0.1459 0.16335 0.1638 RANDOM 7.151
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] 0.19 0.19 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.695 r_dihedral_angle_4_deg 15.722 r_dihedral_angle_3_deg 11.576 r_dihedral_angle_1_deg 6.597 r_scangle_it 4.307 r_scbond_it 2.671 r_mcangle_it 1.672 r_angle_refined_deg 1.595 r_mcbond_it 0.94 r_angle_other_deg 0.908
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.695 r_dihedral_angle_4_deg 15.722 r_dihedral_angle_3_deg 11.576 r_dihedral_angle_1_deg 6.597 r_scangle_it 4.307 r_scbond_it 2.671 r_mcangle_it 1.672 r_angle_refined_deg 1.595 r_mcbond_it 0.94 r_angle_other_deg 0.908 r_mcbond_other 0.269 r_chiral_restr 0.097 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1545 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 20
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement XDS data reduction XDS data scaling