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Structural refinement of the complex of bone morphogenetic protein 2 and its type IA receptor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ES7 PDB ENTRY 1ES7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 280 sodium acetate, imidazole, glucose, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 280K
Crystal Properties Matthews coefficient Solvent content 3.88 68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.493 α = 90 b = 107.493 β = 90 c = 102.282 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 MARRESEARCH 2002-08-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.918 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.86 19.73 96.8 0.083 4.6 54306 54306 1.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.86 1.91 94.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1ES7 1.863 19.73 1.2 54306 51294 2683 96.46 0.2085 0.20738 0.22943 0.2805 RANDOM 36.14
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] -0.01 -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.114 r_scangle_it 3.461 r_scbond_it 2.152 r_angle_refined_deg 1.442 r_mcangle_it 1.355 r_mcbond_it 0.732 r_nbd_refined 0.23 r_symmetry_vdw_refined 0.201 r_xyhbond_nbd_refined 0.192 r_chiral_restr 0.109
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.114 r_scangle_it 3.461 r_scbond_it 2.152 r_angle_refined_deg 1.442 r_mcangle_it 1.355 r_mcbond_it 0.732 r_nbd_refined 0.23 r_symmetry_vdw_refined 0.201 r_xyhbond_nbd_refined 0.192 r_chiral_restr 0.109 r_symmetry_hbond_refined 0.109 r_bond_refined_d 0.017 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2956 Nucleic Acid Atoms Solvent Atoms 185 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALA data scaling CNS refinement MOSFLM data reduction CCP4 data scaling CNS phasing