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Bovine trypsin in complex with microviridin J at pH 6.5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MWY PDB ENTRY 3MWY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.1 M sodium cacodylate, 0.2 M ammonium sulfate, 30% PEG 8000, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.13 42.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.23 α = 90 b = 71.23 β = 90 c = 72.77 γ = 120
Symmetry Space Group P 32 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 PSI PILATUS 6M 2013-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
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 1.35 30 99.447291 0.051 17 5.3 47008 2 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 1.35 1.45 100 0.351 4.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 3MWY 1.35 15 47008 44656 2351 99.39 0.13617 0.13487 0.1412 0.16044 0.1668 RANDOM 19.901
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] -0.12 -0.12 -0.12 0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.725 r_sphericity_free 40.7 r_sphericity_bonded 12.335 r_dihedral_angle_3_deg 12.256 r_dihedral_angle_4_deg 7.804 r_dihedral_angle_1_deg 6.699 r_rigid_bond_restr 5.17 r_scbond_it 3.395 r_mcangle_it 2.462 r_mcbond_it 2.106
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.725 r_sphericity_free 40.7 r_sphericity_bonded 12.335 r_dihedral_angle_3_deg 12.256 r_dihedral_angle_4_deg 7.804 r_dihedral_angle_1_deg 6.699 r_rigid_bond_restr 5.17 r_scbond_it 3.395 r_mcangle_it 2.462 r_mcbond_it 2.106 r_mcbond_other 2.051 r_angle_refined_deg 1.915 r_angle_other_deg 0.963 r_chiral_restr 0.129 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 r_bond_other_d 0.002 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_mcangle_other r_scbond_other r_scangle_it 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 1735 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 1
Software Software Software Name Purpose XDS data scaling PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling