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Human histidine decarboxylase mutant Y334F reacted with histidine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4E1O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 293 0.1 M Tris-HCl (pH 8.5), 28% (w/v) PEG 3350, 0.2 M lithium sulfate
Crystal Properties Matthews coefficient Solvent content 2.09 41.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.902 α = 90 b = 57.654 β = 106.297 c = 117.647 γ = 90
Symmetry Space Group P 1 21 1
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 2012-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0000 SPring-8 BL38B1
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 99.6 0.069 20.6 3.7 52603
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 2.18 0.431
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4E1O 2.1 33.223 52583 2679 99.435 0.214 0.2119 0.2158 0.2521 0.2514 46.105
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] 0.775 2.994 -0.971 -1.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.93 r_dihedral_angle_3_deg 16.301 r_dihedral_angle_4_deg 16.055 r_dihedral_angle_1_deg 6.921 r_lrange_it 3.533 r_lrange_other 3.527 r_mcangle_it 2.043 r_mcangle_other 2.043 r_scangle_it 1.954 r_scangle_other 1.954
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.93 r_dihedral_angle_3_deg 16.301 r_dihedral_angle_4_deg 16.055 r_dihedral_angle_1_deg 6.921 r_lrange_it 3.533 r_lrange_other 3.527 r_mcangle_it 2.043 r_mcangle_other 2.043 r_scangle_it 1.954 r_scangle_other 1.954 r_angle_refined_deg 1.319 r_mcbond_it 1.26 r_mcbond_other 1.258 r_scbond_it 1.167 r_scbond_other 1.161 r_angle_other_deg 1.152 r_symmetry_nbd_refined 0.229 r_symmetry_xyhbond_nbd_refined 0.215 r_nbd_refined 0.19 r_nbd_other 0.183 r_symmetry_nbd_other 0.175 r_nbtor_refined 0.159 r_xyhbond_nbd_refined 0.152 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.057 r_chiral_restr_other 0.039 r_symmetry_xyhbond_nbd_other 0.024 r_bond_refined_d 0.005 r_gen_planes_refined 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 7431 Nucleic Acid Atoms Solvent Atoms 151 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing