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Crystal Structure of Arylmalonate Decarboxylase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 1.5M AMMONIUM SULFATE, 12% (W/V) GLYCEROL, 0.1M TRIS-HCL, pH 8.00, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.92 57.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.508 α = 90 b = 99.395 β = 90 c = 139.981 γ = 90
Symmetry Space Group P 21 21 21
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 210 TOROIDAL MIRROR 2007-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44B2 1.0000 SPring-8 BL44B2
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 2.1 50 99.9 0.057 30.1 7.2 68612 1 1
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 2.1 2.14 100 0.393 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 MIR THROUGHOUT 2.1 20 1 65102 3453 99.9 0.197 0.195 0.1975 0.24 0.2397 RANDOM 34.629
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] 2.2 -1.12 -1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.564 r_dihedral_angle_4_deg 20.548 r_dihedral_angle_3_deg 18.884 r_dihedral_angle_1_deg 6.535 r_scangle_it 3.127 r_mcangle_it 2.654 r_scbond_it 2.142 r_angle_refined_deg 1.975 r_mcbond_it 1.734 r_nbtor_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.564 r_dihedral_angle_4_deg 20.548 r_dihedral_angle_3_deg 18.884 r_dihedral_angle_1_deg 6.535 r_scangle_it 3.127 r_mcangle_it 2.654 r_scbond_it 2.142 r_angle_refined_deg 1.975 r_mcbond_it 1.734 r_nbtor_refined 0.32 r_symmetry_hbond_refined 0.293 r_nbd_refined 0.251 r_symmetry_vdw_refined 0.224 r_xyhbond_nbd_refined 0.213 r_chiral_restr 0.172 r_bond_refined_d 0.02 r_gen_planes_refined 0.008 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6757 Nucleic Acid Atoms Solvent Atoms 406 Heterogen Atoms 49
Software Software Software Name Purpose HKL-2000 data collection MLPHARE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling