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In situ thermolysin crystallized on a MiTeGen micromesh with asparagine ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4TLN PDB ENTRY 4TLN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 In situ crystallization on micromesh 7.5 290 1.45M calcium chloride, 45% DMSO, 50mM TRIS pH 7.5, In situ crystallization on micromesh, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.33 47.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.831 α = 90 b = 92.831 β = 90 c = 129.171 γ = 120
Symmetry Space Group P 61 2 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 2013-08-04 M SINGLE WAVELENGTH 2 1 PIXEL DECTRIS PILATUS 6M 3 1 CCD ADSC QUANTUM 315
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12C 1.1 NSLS X12C 2 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25 3 SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A
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 1.6 31.59 98.1 0.048 58.4 28.2 43577 43035 2 1
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 (All) 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 4TLN 1.6 31.59 2 43035 40851 2167 98.17 0.1316 0.1316 0.13008 0.1438 0.15928 0.1675 RANDOM 16.678
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] -0.43 -0.43 -0.43 1.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.072 r_dihedral_angle_4_deg 17.971 r_dihedral_angle_3_deg 12.666 r_long_range_B_refined 7.363 r_long_range_B_other 6.555 r_dihedral_angle_1_deg 5.829 r_scangle_other 4.157 r_scbond_it 2.983 r_scbond_other 2.983 r_angle_refined_deg 2.559
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.072 r_dihedral_angle_4_deg 17.971 r_dihedral_angle_3_deg 12.666 r_long_range_B_refined 7.363 r_long_range_B_other 6.555 r_dihedral_angle_1_deg 5.829 r_scangle_other 4.157 r_scbond_it 2.983 r_scbond_other 2.983 r_angle_refined_deg 2.559 r_mcangle_it 2.004 r_mcangle_other 2.004 r_mcbond_it 1.518 r_mcbond_other 1.517 r_angle_other_deg 1.128 r_chiral_restr 0.164 r_bond_refined_d 0.029 r_gen_planes_refined 0.014 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2431 Nucleic Acid Atoms Solvent Atoms 460 Heterogen Atoms 61
Software Software Software Name Purpose CBASS data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling