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Crystal structure of the GDF-5:BMP receptor IB complex.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 5.25 294 0.1M sodium acetate, 50% PPG 400, 30mM magnesium sulfate, pH 5.25, VAPOR DIFFUSION, temperature 294K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.455 α = 90 b = 76.455 β = 90 c = 82.784 γ = 90
Symmetry Space Group P 42 21 2
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 mirrors 2006-06-05 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARMOSAIC 225 mm CCD mirrors 2007-03-07 M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.10485 SLS X06SA 2 SYNCHROTRON BESSY BEAMLINE 14.1 0.97962, 0.97979, 0.90789 BESSY 14.1
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 1,2 2.1 34.19 99.5 0.071 9.66 15897 14815
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) 1,2 2.1 2.18 100 0.354 5.3 9.87 1455
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MAD THROUGHOUT 2.1 34.19 15897 14814 752 99.45 0.217 0.217 0.215 0.2192 0.256 0.2602 RANDOM 71.871
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] -2.81 -2.81 5.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.453 r_dihedral_angle_3_deg 20.705 r_dihedral_angle_4_deg 19.031 r_dihedral_angle_1_deg 7.728 r_scangle_it 3.996 r_scbond_it 2.969 r_mcangle_it 2.126 r_angle_refined_deg 1.339 r_mcbond_it 1.249 r_symmetry_vdw_refined 0.357
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.453 r_dihedral_angle_3_deg 20.705 r_dihedral_angle_4_deg 19.031 r_dihedral_angle_1_deg 7.728 r_scangle_it 3.996 r_scbond_it 2.969 r_mcangle_it 2.126 r_angle_refined_deg 1.339 r_mcbond_it 1.249 r_symmetry_vdw_refined 0.357 r_nbtor_refined 0.325 r_symmetry_hbond_refined 0.296 r_nbd_refined 0.257 r_xyhbond_nbd_refined 0.223 r_chiral_restr 0.111 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1483 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms
Software Software Software Name Purpose d*TREK data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection CrystalClear data reduction CrystalClear data scaling