☰ Navigation Tabs
Crystal structure of Bone Morphogenetic Protein-3 (BMP-3)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GOO BMP-2 ligand monomer from PDB entry 2goo
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 296 26% tert-butanol and 0.1 M Na Citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 3.68 66.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.85 α = 90 b = 96.85 β = 90 c = 101.48 γ = 120
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 210 2006-08-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11 ALS 8.3.1
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 43.46 97.9 0.055 37.9 2.9 17488
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 2.28 94.4 0.313 6.2 2.4 1662
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 BMP-2 ligand monomer from PDB entry 2goo 2.21 27.96 16423 880 96.78 0.22956 0.22817 0.2257 0.2572 0.2491 RANDOM 46.53
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] 0.7 0.35 0.7 -1.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.876 r_dihedral_angle_4_deg 17.928 r_dihedral_angle_3_deg 15.456 r_dihedral_angle_1_deg 6.761 r_scangle_it 2.339 r_scbond_it 1.512 r_angle_refined_deg 1.327 r_mcangle_it 1.168 r_mcbond_it 0.663 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.876 r_dihedral_angle_4_deg 17.928 r_dihedral_angle_3_deg 15.456 r_dihedral_angle_1_deg 6.761 r_scangle_it 2.339 r_scbond_it 1.512 r_angle_refined_deg 1.327 r_mcangle_it 1.168 r_mcbond_it 0.663 r_nbtor_refined 0.304 r_nbd_refined 0.201 r_symmetry_hbond_refined 0.197 r_symmetry_vdw_refined 0.173 r_xyhbond_nbd_refined 0.134 r_chiral_restr 0.09 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 1682 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing