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Structure of 14-3-3 in complex with the differentiation-inducing agent Cotylenin A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1O9C PDB ENTRY 1O9C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 277 0.1M Na citrate, 24% PEG 4000, 6% isopropanol, 5 mM MgCl2, 2 mM DTT, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.31 46.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.8 α = 90 b = 141.9 β = 114.1 c = 51.4 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 CCD ADSC QUANTUM 4 2004-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.934 ESRF ID14-2
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 2.5 15 98.2 0.051 0.038 28.7 3.72 18639 18639 -3 49.3
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 2.5 2.6 98.2 0.214 0.233 6.3 3.6 2077
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 1O9C 2.5 14.95 17657 930 100 0.19965 0.19516 0.2087 0.28544 0.2955 RANDOM 22.184
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] -0.39 -0.31 -0.25 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.928 r_dihedral_angle_3_deg 20.718 r_dihedral_angle_4_deg 18.6 r_dihedral_angle_1_deg 6.041 r_scangle_it 3.203 r_angle_refined_deg 2.074 r_scbond_it 2.071 r_mcangle_it 1.154 r_mcbond_it 0.612 r_chiral_restr 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.928 r_dihedral_angle_3_deg 20.718 r_dihedral_angle_4_deg 18.6 r_dihedral_angle_1_deg 6.041 r_scangle_it 3.203 r_angle_refined_deg 2.074 r_scbond_it 2.071 r_mcangle_it 1.154 r_mcbond_it 0.612 r_chiral_restr 0.17 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3733 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 93
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing