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Does a Fast Nuclear Magnetic Resonance Spectroscopy- and X-Ray Crystallography Hybrid Approach Provide Reliable Structural Information of Ligand-Protein Complexes? A Case Study of Metalloproteinases.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other IN HOUSE COORDINATES
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.2 291 100 MM IMIDAZOLE,1.1-1.6 M SODIUM ACETATE, 1 MM 1,3-DIAMINO-PROPANE, PH 6.2, 291K
Crystal Properties Matthews coefficient Solvent content 2.05 40.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.16 α = 90 b = 99.939 β = 96.59 c = 79.423 γ = 90
Symmetry Space Group P 1 21 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 ADSC CCD MIRRORS 2005-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.2 SRS PX14.2
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 2 31.1 97.4 0.1 5.8 4 38877 1 13.02
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 2.11 87.1 0.2 3.7 3.8
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 IN HOUSE COORDINATES 2 33.71 36902 1948 100 0.18157 0.17868 0.1813 0.23683 0.2394 RANDOM 5.68
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] -0.17 -0.22 -0.17 0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.104 r_dihedral_angle_4_deg 16.845 r_dihedral_angle_3_deg 14.548 r_dihedral_angle_1_deg 6.343 r_scangle_it 1.353 r_angle_refined_deg 1.254 r_scbond_it 0.969 r_mcangle_it 0.511 r_nbtor_refined 0.306 r_mcbond_it 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.104 r_dihedral_angle_4_deg 16.845 r_dihedral_angle_3_deg 14.548 r_dihedral_angle_1_deg 6.343 r_scangle_it 1.353 r_angle_refined_deg 1.254 r_scbond_it 0.969 r_mcangle_it 0.511 r_nbtor_refined 0.306 r_mcbond_it 0.294 r_symmetry_vdw_refined 0.246 r_symmetry_hbond_refined 0.22 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.171 r_chiral_restr 0.09 r_metal_ion_refined 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_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 4964 Nucleic Acid Atoms Solvent Atoms 683 Heterogen Atoms 161
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing