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Designed Armadillo repeat protein YIIIM5AII in complex with peptide (KR)5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4PLR PDB ENTRY 4PLR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.2 M CA-ACETATE, 0.1 M TRIS (HOAC), 8% PEG 20K, 8% PEG 550MME, PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.69 54.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.83 α = 90 b = 215.28 β = 90 c = 105.99 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS PILATUS 2M-F TOROIDAL FOCUSING 2012-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA SLS X06DA
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 1.83 50 100 0.18 14.24 11.1 89570 2
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 1.83 1.88 100 1.5 2.02 11.1
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 4PLR 1.83 107.64 85179 4390 99.96 0.15015 0.14864 0.1614 0.17914 0.19 RANDOM 20.383
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] 0.43 -0.63 0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.652 r_dihedral_angle_4_deg 16.023 r_dihedral_angle_3_deg 13.049 r_dihedral_angle_1_deg 5.243 r_scbond_it 3.479 r_mcangle_it 2.075 r_angle_refined_deg 2.052 r_angle_other_deg 2.042 r_mcbond_it 1.43 r_mcbond_other 1.419
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.652 r_dihedral_angle_4_deg 16.023 r_dihedral_angle_3_deg 13.049 r_dihedral_angle_1_deg 5.243 r_scbond_it 3.479 r_mcangle_it 2.075 r_angle_refined_deg 2.052 r_angle_other_deg 2.042 r_mcbond_it 1.43 r_mcbond_other 1.419 r_chiral_restr 0.136 r_bond_refined_d 0.025 r_bond_other_d 0.015 r_gen_planes_refined 0.015 r_gen_planes_other 0.007 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_mcangle_other r_scbond_other r_scangle_it 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 6558 Nucleic Acid Atoms Solvent Atoms 907 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing