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V232K, N236D-trichosanthin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TCS PDB ENTRY 1TCS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 2% PEG 8000, 1.0 M LITHIUM SULFATE
Crystal Properties Matthews coefficient Solvent content 3.74 66.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.64 α = 90 b = 73.64 β = 90 c = 143.443 γ = 120
Symmetry Space Group P 31 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 110 IMAGE PLATE RIGAKU IMAGE PLATE 2007-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 2.3 35.67 99.7 0.08 17.8 3.7 20607 3
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 2.3 2.42 98.7 0.2 4.9 3.5
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1TCS 2.3 63.76 19527 1051 99.6 0.186 0.184 0.1937 0.214 RANDOM 20.54
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] 1.12 0.56 1.12 -1.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.243 r_dihedral_angle_4_deg 23.635 r_dihedral_angle_3_deg 13.682 r_dihedral_angle_1_deg 6.19 r_scangle_it 2.614 r_scbond_it 1.811 r_angle_refined_deg 1.385 r_mcangle_it 1.106 r_mcbond_it 0.963 r_angle_other_deg 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.243 r_dihedral_angle_4_deg 23.635 r_dihedral_angle_3_deg 13.682 r_dihedral_angle_1_deg 6.19 r_scangle_it 2.614 r_scbond_it 1.811 r_angle_refined_deg 1.385 r_mcangle_it 1.106 r_mcbond_it 0.963 r_angle_other_deg 0.86 r_symmetry_vdw_other 0.207 r_nbd_refined 0.197 r_nbd_other 0.188 r_nbtor_refined 0.171 r_xyhbond_nbd_refined 0.157 r_symmetry_vdw_refined 0.132 r_symmetry_hbond_refined 0.128 r_chiral_restr 0.09 r_nbtor_other 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 1911 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling MOSFLM phasing