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Plastidial phosphorylase PhoI from barley in complex with maltotetraose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LRB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 288 30% PEG4000, 0.1M Na Citrate
Crystal Properties Matthews coefficient Solvent content 2.28 46.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 227.69 α = 90 b = 63.15 β = 114.72 c = 148.19 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 225 mm CCD 2012-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.87260 ESRF ID23-2
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 3 50 99.7 0.109 10.1 3.8 38803
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 3 3.2 1.128 1.13 3.8 6756
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5LRB 3 49.39 37637 1165 99.82 0.19626 0.19483 0.1959 0.24286 0.2447 RANDOM 90.192
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] -1 -1.36 3.07 -1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.504 r_dihedral_angle_3_deg 17.224 r_dihedral_angle_4_deg 16.753 r_long_range_B_refined 6.205 r_long_range_B_other 6.203 r_dihedral_angle_1_deg 5.865 r_scangle_other 2.935 r_mcangle_it 2.661 r_mcangle_other 2.661 r_scbond_it 1.736
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.504 r_dihedral_angle_3_deg 17.224 r_dihedral_angle_4_deg 16.753 r_long_range_B_refined 6.205 r_long_range_B_other 6.203 r_dihedral_angle_1_deg 5.865 r_scangle_other 2.935 r_mcangle_it 2.661 r_mcangle_other 2.661 r_scbond_it 1.736 r_scbond_other 1.736 r_mcbond_it 1.59 r_mcbond_other 1.59 r_angle_refined_deg 1.158 r_angle_other_deg 0.791 r_chiral_restr 0.06 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13424 Nucleic Acid Atoms Solvent Atoms 47 Heterogen Atoms 166
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing