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Crystal structure of growth differentiation factor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2R52 PDB entry 2R52
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 15% w/v Tascimate, pH 7.0, 0.1 M HEPES, pH 7.0, 2% PEG3350
Crystal Properties Matthews coefficient Solvent content 4.24 70.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.72 α = 90 b = 64.72 β = 90 c = 172.53 γ = 120
Symmetry Space Group P 31 2 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 MARMOSAIC 225 mm CCD 2009-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9793 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.282 40.139 99.8 0.08 0.09 0.04 11.3 5 19823
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.41 99 0.704 0.704 0.797 0.366 1.1 4.5
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 2R52 2.3 30 18768 1003 99.72 0.2083 0.2065 0.2058 0.2418 0.2411 RANDOM 52.322
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] 0.33 0.16 0.33 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.481 r_dihedral_angle_3_deg 18.274 r_dihedral_angle_4_deg 14.345 r_dihedral_angle_1_deg 6.213 r_angle_refined_deg 1.643 r_chiral_restr 0.125 r_bond_refined_d 0.011 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1650 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms 24
Software Software Software Name Purpose MOSFLM data collection SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction PHASER phasing