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Plastidial phosphorylase from Barley in complex with acarbose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LR8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.8 288 30% PEG4000, 0.1M Nacitrate
Crystal Properties Matthews coefficient Solvent content 2.34 47.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 230.33 α = 90 b = 63.68 β = 115.07 c = 149.33 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 PIXEL DECTRIS PILATUS 6M 2013-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.95373 ESRF ID29
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 2.9 50 98 0.137 7.6 3.2 43219
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 2.9 3.1 1.153 0.98 2.7
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 5LR8 2.9 48.92 41921 1297 98.16 0.21358 0.21257 0.2183 0.24602 0.2457 RANDOM 76.706
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] 2.02 0.48 -3.19 0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.342 r_dihedral_angle_4_deg 17.322 r_dihedral_angle_3_deg 16.817 r_dihedral_angle_1_deg 5.648 r_long_range_B_refined 5.265 r_long_range_B_other 5.265 r_scangle_other 2.369 r_mcangle_it 2.262 r_mcangle_other 2.262 r_scbond_it 1.407
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.342 r_dihedral_angle_4_deg 17.322 r_dihedral_angle_3_deg 16.817 r_dihedral_angle_1_deg 5.648 r_long_range_B_refined 5.265 r_long_range_B_other 5.265 r_scangle_other 2.369 r_mcangle_it 2.262 r_mcangle_other 2.262 r_scbond_it 1.407 r_scbond_other 1.406 r_mcbond_it 1.329 r_mcbond_other 1.329 r_angle_refined_deg 1.107 r_angle_other_deg 0.754 r_chiral_restr 0.074 r_bond_refined_d 0.007 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 13420 Nucleic Acid Atoms Solvent Atoms 56 Heterogen Atoms 142
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing