☰ Navigation Tabs
The Crystal Structure of CASP1 from Biortus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E4C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.15M Na formate, 14% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.36 47.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.807 α = 90 b = 62.807 β = 90 c = 144.132 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 PIXEL DECTRIS PILATUS 6M 2023-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1 SPring-8 BL45XU
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 1.45 48.04 100 0.101 17.6 12.7 52141
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 1.45 1.47 1.042 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.45 47.394 52045 2618 99.99 0.193 0.1916 0.1915 0.2129 0.2133 14.006
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] 0.074 0.074 -0.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.513 r_dihedral_angle_3_deg 13.339 r_dihedral_angle_1_deg 7.154 r_dihedral_angle_2_deg 5.671 r_lrange_it 5.494 r_lrange_other 5.124 r_scangle_it 2.256 r_scangle_other 2.256 r_mcangle_it 2.224 r_mcangle_other 2.223
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.513 r_dihedral_angle_3_deg 13.339 r_dihedral_angle_1_deg 7.154 r_dihedral_angle_2_deg 5.671 r_lrange_it 5.494 r_lrange_other 5.124 r_scangle_it 2.256 r_scangle_other 2.256 r_mcangle_it 2.224 r_mcangle_other 2.223 r_scbond_it 1.326 r_scbond_other 1.326 r_mcbond_it 1.255 r_mcbond_other 1.255 r_angle_refined_deg 1.087 r_angle_other_deg 0.389 r_nbd_other 0.211 r_nbd_refined 0.208 r_symmetry_nbd_other 0.189 r_nbtor_refined 0.176 r_symmetry_nbd_refined 0.166 r_xyhbond_nbd_refined 0.132 r_symmetry_xyhbond_nbd_refined 0.1 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.054 r_gen_planes_refined 0.005 r_bond_refined_d 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1960 Nucleic Acid Atoms Solvent Atoms 300 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing