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Crystal Structure of JMJD2A complexed with inhibitor Pyridine-2,4- dicarboxylic acid
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 20% PEG3350 0.1M CITRATE PH 5.5
Crystal Properties Matthews coefficient Solvent content 2.54 51.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.285 α = 90 b = 149.121 β = 90 c = 57.566 γ = 90
Symmetry Space Group P 21 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 MARRESEARCH MIRRORS 2007-07-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 2.25 38.01 99.1 0.07 12.2 3.5 143382
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 2.25 2.37 98.7 0.6 2.5 3.2
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 MOLECULAR REPLACEMENT THROUGHOUT 2.25 37.63 39866 1754 98.6 0.172 0.17 0.1677 0.219 0.2128 RANDOM 42.46
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] -0.68 -1.07 1.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.307 r_dihedral_angle_3_deg 15.351 r_dihedral_angle_4_deg 14.99 r_dihedral_angle_1_deg 6.27 r_scangle_it 2.934 r_scbond_it 1.92 r_angle_refined_deg 1.439 r_mcangle_it 1.227 r_mcbond_it 0.75 r_symmetry_hbond_refined 0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.307 r_dihedral_angle_3_deg 15.351 r_dihedral_angle_4_deg 14.99 r_dihedral_angle_1_deg 6.27 r_scangle_it 2.934 r_scbond_it 1.92 r_angle_refined_deg 1.439 r_mcangle_it 1.227 r_mcbond_it 0.75 r_symmetry_hbond_refined 0.56 r_nbtor_refined 0.31 r_nbd_refined 0.203 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.169 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_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 5588 Nucleic Acid Atoms Solvent Atoms 357 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling REFMAC phasing