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Crystal structure of the a0a fragment of ERp72
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2B5E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 0.01M zinc chloride, 20% PEG 6000, 0.1M Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.34 47.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.883 α = 90 b = 54.883 β = 90 c = 166.497 γ = 90
Symmetry Space Group P 41 21 2
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 210 mirrors 2007-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 0.9995 CHESS A1
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 1.95 50 99.9 0.12 14.8 8.5 18326 18308 1 1
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 1.95 2.02 99.9 0.374 6.9 7 1284
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 2b5e 1.95 45.83 1 18326 18308 990 99.87 0.20841 0.2064 0.2019 0.24577 0.2424 RANDOM 22.472
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] -0.01 -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.631 r_dihedral_angle_4_deg 18.067 r_dihedral_angle_3_deg 17.882 r_dihedral_angle_1_deg 5.275 r_scangle_it 4.076 r_scbond_it 2.452 r_mcangle_it 1.573 r_angle_refined_deg 1.44 r_mcbond_it 0.935 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.631 r_dihedral_angle_4_deg 18.067 r_dihedral_angle_3_deg 17.882 r_dihedral_angle_1_deg 5.275 r_scangle_it 4.076 r_scbond_it 2.452 r_mcangle_it 1.573 r_angle_refined_deg 1.44 r_mcbond_it 0.935 r_nbtor_refined 0.309 r_symmetry_hbond_refined 0.269 r_xyhbond_nbd_refined 0.244 r_nbd_refined 0.224 r_symmetry_vdw_refined 0.167 r_metal_ion_refined 0.135 r_chiral_restr 0.126 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1854 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 3
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling