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Crystal structure of apo AChBP from Aplysia californica
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UX2 PDB ENTRY 1UX2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 12-14% PEG 4000, 0.1 M SODIUM CITRATE, PH 5.6, 20% ISOPROPANOL, 5% GLYCEROL
Crystal Properties Matthews coefficient Solvent content 2.8 55.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.153 α = 90 b = 146.768 β = 90 c = 143.307 γ = 90
Symmetry Space Group C 2 2 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-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 2.02 50 98.5 0.06 13.6 6.2 97846
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 PDB ENTRY 1UX2 2.02 40.03 94830 2980 98.5 0.17 0.169 0.2728 0.202 0.3239 RANDOM 38.51
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] -1.36 2.49 -1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.033 r_dihedral_angle_4_deg 23.07 r_dihedral_angle_3_deg 14.505 r_dihedral_angle_1_deg 6.736 r_scangle_it 2.836 r_scbond_it 1.884 r_angle_refined_deg 1.411 r_mcangle_it 1.357 r_mcbond_it 0.905 r_angle_other_deg 0.779
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.033 r_dihedral_angle_4_deg 23.07 r_dihedral_angle_3_deg 14.505 r_dihedral_angle_1_deg 6.736 r_scangle_it 2.836 r_scbond_it 1.884 r_angle_refined_deg 1.411 r_mcangle_it 1.357 r_mcbond_it 0.905 r_angle_other_deg 0.779 r_symmetry_vdw_other 0.275 r_symmetry_vdw_refined 0.232 r_symmetry_hbond_refined 0.214 r_nbd_other 0.197 r_xyhbond_nbd_refined 0.195 r_nbd_refined 0.192 r_nbtor_refined 0.175 r_nbtor_other 0.084 r_chiral_restr 0.082 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8512 Nucleic Acid Atoms Solvent Atoms 882 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing