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Structure of histone demethylase REF6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 PEG
Crystal Properties Matthews coefficient Solvent content 2.55 51.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.494 α = 90 b = 62.494 β = 90 c = 43.157 γ = 90
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 315 2017-03-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9793 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.57 50 99.7 0.057 76.8 12.8 23425
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.57 1.6 99.1 0.496
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 (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 1.57 50 22150 1187 99.71 0.21199 0.21085 0.2168 0.23384 0.2399 RANDOM 35.563
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] -0.41 -0.41 0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.181 r_dihedral_angle_4_deg 13.217 r_dihedral_angle_3_deg 11.079 r_dihedral_angle_1_deg 4.787 r_long_range_B_refined 4.186 r_long_range_B_other 3.866 r_mcangle_it 1.998 r_mcangle_other 1.997 r_scangle_other 1.916 r_scbond_it 1.166
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.181 r_dihedral_angle_4_deg 13.217 r_dihedral_angle_3_deg 11.079 r_dihedral_angle_1_deg 4.787 r_long_range_B_refined 4.186 r_long_range_B_other 3.866 r_mcangle_it 1.998 r_mcangle_other 1.997 r_scangle_other 1.916 r_scbond_it 1.166 r_scbond_other 1.166 r_mcbond_it 1.129 r_mcbond_other 1.127 r_angle_refined_deg 0.967 r_angle_other_deg 0.816 r_chiral_restr 0.054 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 929 Nucleic Acid Atoms Solvent Atoms 119 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling HKL2Map phasing