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Accurate Computer Base Design of a New Backbone Conformation in the Second Turn of Protein L
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HZ6 PDB ENTRY 1HZ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 1M Sodium Citrate, 100mM Cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.2 43.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.622 α = 90 b = 55.542 β = 90 c = 67.382 γ = 90
Symmetry Space Group P 21 21 21
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 IV mirrors 2000-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.9 25 96.9 0.049 0.043 36.4 6.9 11610 11610 -3 -3 23.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.96 95.1 0.27 0.252 6.9 6.8 923
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1HZ6 1.9 23.09 11579 11579 1134 97 0.197 0.197 0.1971 0.227 0.2274 RANDOM 34.9
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] 6.22 -3.83 -2.39
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.1 c_scangle_it 5.19 c_scbond_it 3.8 c_mcangle_it 2.72 c_mcbond_it 1.74 c_angle_deg 1.5 c_improper_angle_d 0.77 c_bond_d 0.009 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.1 c_scangle_it 5.19 c_scbond_it 3.8 c_mcangle_it 2.72 c_mcbond_it 1.74 c_angle_deg 1.5 c_improper_angle_d 0.77 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 994 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms
Software Software Software Name Purpose EPMR phasing CNS refinement SCALEPACK data scaling