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The X-ray crystal structure of the 67kDa isoform of Glutamic Acid Decarboxylase (GAD67)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JS3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 293 18% PEG8,000, 100 mM MES, pH 6.3, 10 mM 2-mercaptoethanol and 20 mM CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.23 44.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.048 α = 90 b = 62.739 β = 106.68 c = 101.346 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 4 2006-04-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.000 APS 17-ID
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 2.3 97.13 93.7 0.045 17.1 3.4 42284 42284
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) 2.3 69.2 0.194 4.4 2.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1js3 2.3 97.13 42284 42271 2118 93.38 0.188 0.186 0.222 0.2086 RANDOM 25.208
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] -0.4 -2.11 0.08 -0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.656 r_dihedral_angle_4_deg 15.647 r_dihedral_angle_3_deg 15.429 r_dihedral_angle_1_deg 5.554 r_scangle_it 3.534 r_scbond_it 2.294 r_mcangle_it 1.528 r_angle_refined_deg 1.148 r_mcbond_it 0.864 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.656 r_dihedral_angle_4_deg 15.647 r_dihedral_angle_3_deg 15.429 r_dihedral_angle_1_deg 5.554 r_scangle_it 3.534 r_scbond_it 2.294 r_mcangle_it 1.528 r_angle_refined_deg 1.148 r_mcbond_it 0.864 r_nbtor_refined 0.299 r_symmetry_vdw_refined 0.22 r_nbd_refined 0.189 r_xyhbond_nbd_refined 0.124 r_symmetry_hbond_refined 0.098 r_chiral_restr 0.084 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7919 Nucleic Acid Atoms Solvent Atoms 359 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling PHASER phasing