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Crystal structure of hypothetical Trp repressor binding protein from Sul folobus tokodaii (ST0872)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZWK PDB ENTRY 1ZWK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 1.8M ammonium sulfate, 5% iso-propanol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.95 58.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.624 α = 90 b = 194.995 β = 90 c = 100.851 γ = 90
Symmetry Space Group P 21 21 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 IMAGE PLATE RIGAKU RAXIS VII conforcal mirrors 2005-10-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 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 2.9 200 93.6 0.083 18.9 6.29 46470 43496 42.1
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) 2.9 3 93.2 0.24
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 1ZWK 2.9 100.85 41294 2200 92.82 0.20507 0.20233 0.1947 0.25695 0.2437 RANDOM 29.967
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] -1.04 -1.05 2.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.268 r_dihedral_angle_3_deg 14.272 r_dihedral_angle_4_deg 13.444 r_dihedral_angle_1_deg 4.489 r_angle_refined_deg 0.846 r_scangle_it 0.606 r_mcangle_it 0.505 r_scbond_it 0.349 r_nbtor_refined 0.292 r_mcbond_it 0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.268 r_dihedral_angle_3_deg 14.272 r_dihedral_angle_4_deg 13.444 r_dihedral_angle_1_deg 4.489 r_angle_refined_deg 0.846 r_scangle_it 0.606 r_mcangle_it 0.505 r_scbond_it 0.349 r_nbtor_refined 0.292 r_mcbond_it 0.28 r_nbd_refined 0.156 r_symmetry_vdw_refined 0.127 r_symmetry_hbond_refined 0.122 r_xyhbond_nbd_refined 0.108 r_chiral_restr 0.061 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 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 12080 Nucleic Acid Atoms Solvent Atoms 228 Heterogen Atoms 245
Software Software Software Name Purpose REFMAC refinement CrystalClear data collection DENZO data reduction SCALEPACK data scaling MOLREP phasing