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Crystal structure of FG41MSAD inactivated by 3-chloropropiolate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MJZ PDB ENTRY 3MJZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Sitting drop 8.5 277 3 micro liter of protein solution (24.5 mg/mL in 10 mM sodium phosphate buffer, pH 8) mixed with 3 micro liter crystallization solution (0.1 M Tris hydrochloride buffer, pH 8.5, 2.0 M mono-ammonium dihydrogen phosphate), Sitting drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.43 64.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.227 α = 90 b = 144.227 β = 90 c = 144.227 γ = 90
Symmetry Space Group P 21 3
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2007-12-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 2.21 102.06 95.1 0.116 8.1 33.1 47735
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 2.21 2.29 55.9 0.894 2
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 3MJZ 2.224 102.06 45095 2398 96.47 0.2265 0.22394 0.2227 0.27504 0.2684 RANDOM 38.467
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.438 r_dihedral_angle_4_deg 18.643 r_dihedral_angle_3_deg 17.983 r_dihedral_angle_1_deg 7.046 r_scangle_it 3.258 r_scbond_it 2.158 r_angle_refined_deg 1.687 r_mcangle_it 1.217 r_mcbond_it 0.733 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.438 r_dihedral_angle_4_deg 18.643 r_dihedral_angle_3_deg 17.983 r_dihedral_angle_1_deg 7.046 r_scangle_it 3.258 r_scbond_it 2.158 r_angle_refined_deg 1.687 r_mcangle_it 1.217 r_mcbond_it 0.733 r_nbtor_refined 0.309 r_nbd_refined 0.252 r_xyhbond_nbd_refined 0.215 r_symmetry_hbond_refined 0.201 r_symmetry_vdw_refined 0.184 r_chiral_restr 0.127 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 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_refined 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4911 Nucleic Acid Atoms Solvent Atoms 486 Heterogen Atoms 30
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection HKL-2000 data reduction CaspR phasing