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Designed TPR module (CTPR390) in complex with its peptide-ligand (Hsp90 peptide)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NA0 PDB entry 1NA0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 10 295 50 mM NaH2PO4, 20% (w/v) PEG 20000, 50 mM CAPS, pH 10.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.1 41.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.674 α = 90 b = 100.674 β = 90 c = 161.574 γ = 120
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 2004-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12C 1.1001 NSLS X12C
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 2.85 76.7 99.4 0.075 0.075 21.18 5.3 13878 13180
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 2.85 2.95 99.7 0.397 0.397 1.16 5.28
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 1NA0 2.85 50 13878 13180 696 97.26 0.27114 0.27055 0.2678 0.28255 0.2739 RANDOM 35.289
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] -2.31 -1.16 -2.31 3.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.298 r_dihedral_angle_4_deg 17.565 r_dihedral_angle_3_deg 16.23 r_mcangle_it 4.193 r_scangle_it 3.939 r_dihedral_angle_1_deg 3.838 r_mcbond_it 2.735 r_scbond_it 2.622 r_angle_refined_deg 0.708 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.298 r_dihedral_angle_4_deg 17.565 r_dihedral_angle_3_deg 16.23 r_mcangle_it 4.193 r_scangle_it 3.939 r_dihedral_angle_1_deg 3.838 r_mcbond_it 2.735 r_scbond_it 2.622 r_angle_refined_deg 0.708 r_nbtor_refined 0.302 r_nbd_refined 0.156 r_symmetry_vdw_refined 0.132 r_xyhbond_nbd_refined 0.121 r_symmetry_hbond_refined 0.104 r_chiral_restr 0.054 r_bond_refined_d 0.005 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 4416 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling