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yCP in complex with BOC-ALA-ALA-ALA-CHO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RYP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 293 20 mM MgAc2, 100 mM MES, 13% MPD
, pH 6.8 , VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.7 66.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 134.99 α = 90 b = 300.13 β = 112.51 c = 144.8 γ = 90
Symmetry Space Group P 1 21 1
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 PSI PILATUS 6M 2013-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
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 3 20 92 0.086 10.4 3 211987 194983 2 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 3 3.1 88.4 0.541 2.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 1RYP 3 15 2 194983 185233 9750 92.09 0.17988 0.17846 0.1788 0.20675 0.2039 RANDOM 68.738
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] 4.97 -1.43 -7.17 2.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.29 r_sphericity_free 32.981 r_dihedral_angle_3_deg 19.587 r_dihedral_angle_4_deg 18.35 r_sphericity_bonded 6.813 r_dihedral_angle_1_deg 6.45 r_long_range_B_refined 3.834 r_long_range_B_other 3.829 r_mcangle_it 3.419 r_mcangle_other 3.418
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.29 r_sphericity_free 32.981 r_dihedral_angle_3_deg 19.587 r_dihedral_angle_4_deg 18.35 r_sphericity_bonded 6.813 r_dihedral_angle_1_deg 6.45 r_long_range_B_refined 3.834 r_long_range_B_other 3.829 r_mcangle_it 3.419 r_mcangle_other 3.418 r_scangle_other 3.152 r_scbond_it 2.851 r_scbond_other 2.85 r_mcbond_it 2.799 r_mcbond_other 2.799 r_rigid_bond_restr 2.173 r_angle_refined_deg 1.102 r_angle_other_deg 0.747 r_chiral_restr 0.062 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 49454 Nucleic Acid Atoms Solvent Atoms 180 Heterogen Atoms 11
Software Software Software Name Purpose XDS data scaling REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing