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Structure of crystal form I of TP0453
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K8J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 12% PEG 3350, 0.1M MgCl2, 0.1M MES, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.67 53.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.297 α = 90 b = 44.764 β = 99.75 c = 96.965 γ = 90
Symmetry Space Group C 1 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 CCD ADSC QUANTUM 210 2008-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 0.9789 CHESS A1
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 2.39 50 98.1 0.062 19.6 3.9 24202 24202
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 2.39 2.44 82.7 0.303 3.1 2.7
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 3K8J 2.39 42.72 22964 1232 97.77 0.20872 0.20595 0.2156 0.25804 0.2641 RANDOM 36.426
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] 0.08 -0.21 -0.03 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.391 r_dihedral_angle_4_deg 21.16 r_dihedral_angle_3_deg 18.735 r_dihedral_angle_1_deg 5.933 r_scangle_it 5.548 r_scbond_it 3.543 r_mcangle_it 2.55 r_mcbond_it 1.416 r_angle_refined_deg 1.243 r_chiral_restr 0.084
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.391 r_dihedral_angle_4_deg 21.16 r_dihedral_angle_3_deg 18.735 r_dihedral_angle_1_deg 5.933 r_scangle_it 5.548 r_scbond_it 3.543 r_mcangle_it 2.55 r_mcbond_it 1.416 r_angle_refined_deg 1.243 r_chiral_restr 0.084 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3967 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 16
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement DENZO data reduction HKL-2000 data scaling