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Re-refined of Crystal structure of dopa decarboxylase in complex with the inhibitor carbidopa (1JS3) with ketoenamine form of carbidopa
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 PEG MME 5000, MES, ammonium sulfate at pH 6.5, VAPOR DIFFUSION, HANGING DROP at 298K, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.76 55.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 154.36 α = 90 b = 154.36 β = 90 c = 86.78 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH 1993-04-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LURE BEAMLINE D41A 0.9500 LURE D41A
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 2.25 19.611 95.8 0.056 9.5 2.9 53582 15
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 2.25 2.3 70.7 0.19 4.7 1.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.25 19.61 53582 2540 95.781 0.119 0.1171 0.1294 0.1538 0.1594 RANDOM 23.854
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] -0.021 -0.01 -0.021 0.067
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.98 r_dihedral_angle_3_deg 13.882 r_dihedral_angle_2_deg 9.41 r_lrange_it 8.333 r_lrange_other 8.306 r_scangle_it 7.218 r_scangle_other 7.102 r_dihedral_angle_1_deg 6.434 r_scbond_it 5.11 r_scbond_other 5.045
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.98 r_dihedral_angle_3_deg 13.882 r_dihedral_angle_2_deg 9.41 r_lrange_it 8.333 r_lrange_other 8.306 r_scangle_it 7.218 r_scangle_other 7.102 r_dihedral_angle_1_deg 6.434 r_scbond_it 5.11 r_scbond_other 5.045 r_mcangle_other 3.042 r_mcangle_it 3.041 r_mcbond_it 2.258 r_mcbond_other 2.256 r_angle_refined_deg 1.697 r_angle_other_deg 0.588 r_nbd_refined 0.222 r_nbtor_refined 0.19 r_symmetry_nbd_refined 0.189 r_symmetry_nbd_other 0.187 r_nbd_other 0.179 r_symmetry_xyhbond_nbd_refined 0.173 r_xyhbond_nbd_refined 0.15 r_symmetry_nbtor_other 0.086 r_chiral_restr 0.084 r_ncsr_local_group_1 0.053 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7284 Nucleic Acid Atoms Solvent Atoms 579 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SHARP phasing DM model building DM phasing