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MPD-Lysozyme structure at 55.5 keV using a TRIXXEL CsI-aSi based digital imager and the new ESRF U22 undulator source at ID15
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CGI PDB ENTRY 2CGI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 HANGING DROP METHOD AT 295K. DROP IS 1 MICROL OF 50 MG/ML PROTEIN AND 1 MICROL OF WELL SOLUTION. WELL VOLUME IS 1ML OF 70 % MPD FROM HAMPTON RESEARCH.
Crystal Properties Matthews coefficient Solvent content 2.01 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.207 α = 90 b = 77.207 β = 90 c = 37.767 γ = 90
Symmetry Space Group P 43 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 FLAT PANEL TRIXXEL SINGLE BOUNCE BENT BRAGG MONO 2008-07-19 M SINGLE WAVELENGTH 2 1 x-ray CCD ADSC CCD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID15B 0.22 ESRF ID15B 2 SYNCHROTRON NSLS BEAMLINE X6A NSLS X6A
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 1.52 20 99.2 0.06 19.6 6.6 17977 2 11.2
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 1.52 1.54 89.1 0.24 3.4 3.4
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 2CGI 1.52 19.3 17023 915 100 0.14874 0.14621 0.1483 0.19902 0.2013 RANDOM 13.263
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] -0.45 -0.45 0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.762 r_dihedral_angle_4_deg 18.328 r_dihedral_angle_3_deg 12.638 r_sphericity_free 5.889 r_dihedral_angle_1_deg 5.638 r_scangle_it 3.856 r_sphericity_bonded 3.264 r_scbond_it 2.666 r_mcangle_it 1.841 r_rigid_bond_restr 1.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.762 r_dihedral_angle_4_deg 18.328 r_dihedral_angle_3_deg 12.638 r_sphericity_free 5.889 r_dihedral_angle_1_deg 5.638 r_scangle_it 3.856 r_sphericity_bonded 3.264 r_scbond_it 2.666 r_mcangle_it 1.841 r_rigid_bond_restr 1.49 r_angle_refined_deg 1.336 r_mcbond_it 1.158 r_chiral_restr 0.091 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1000 Nucleic Acid Atoms Solvent Atoms 123 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing