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Human histidine decarboxylase mutant Y334F
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 2.14 42.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.984 α = 90 b = 85.086 β = 90 c = 188.302 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 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 1.9 35 99.2 0.086 22.5 6.5 73859
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 1.9 1.97 0.759
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 1.9 34.301 73762 3719 99.181 0.169 0.1671 0.176 0.2061 0.2125 27.497
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] 0.108 -0.874 0.767
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.385 r_dihedral_angle_4_deg 16.836 r_dihedral_angle_3_deg 15.504 r_dihedral_angle_1_deg 6.996 r_lrange_it 3.703 r_lrange_other 3.674 r_scangle_it 2.339 r_scangle_other 2.33 r_angle_refined_deg 1.723 r_mcangle_it 1.681
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.385 r_dihedral_angle_4_deg 16.836 r_dihedral_angle_3_deg 15.504 r_dihedral_angle_1_deg 6.996 r_lrange_it 3.703 r_lrange_other 3.674 r_scangle_it 2.339 r_scangle_other 2.33 r_angle_refined_deg 1.723 r_mcangle_it 1.681 r_mcangle_other 1.681 r_scbond_it 1.457 r_scbond_other 1.45 r_angle_other_deg 1.409 r_mcbond_it 1.098 r_mcbond_other 1.098 r_nbd_refined 0.213 r_symmetry_nbd_other 0.178 r_nbd_other 0.174 r_nbtor_refined 0.172 r_symmetry_nbd_refined 0.154 r_xyhbond_nbd_refined 0.134 r_symmetry_xyhbond_nbd_refined 0.13 r_chiral_restr_other 0.121 r_chiral_restr 0.085 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_symmetry_xyhbond_nbd_other 0.003 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7416 Nucleic Acid Atoms Solvent Atoms 397 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing