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Crystal structure of Bone Morphogenetic Protein-7 (BMP-7) in complex with the secreted antagonist Noggin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 0.6 M disodium, 1.0 M monopotassium phosphate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 4.81 74.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.834 α = 90 b = 99.834 β = 90 c = 150.327 γ = 90
Symmetry Space Group P 41 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 ADSC QUANTUM 4 2001-04-15 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1.04888, 0.91987, 0.91957, 0.88557 SSRL BL9-2
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 2.42 60 96.8 0.054 29713 28463 -3
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 2.42 2.483 99.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.42 60.05 27000 1441 95.73 0.24243 0.24078 0.2467 0.27303 0.2739 RANDOM 60.096
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] 0.96 0.96 -1.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 24.632 r_scangle_it 6.602 r_dihedral_angle_1_deg 6.173 r_scbond_it 4.116 r_mcangle_it 3.227 r_angle_refined_deg 3.034 r_mcbond_it 1.78 r_angle_other_deg 1.345 r_symmetry_vdw_other 0.347 r_nbtor_other 0.343
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 24.632 r_scangle_it 6.602 r_dihedral_angle_1_deg 6.173 r_scbond_it 4.116 r_mcangle_it 3.227 r_angle_refined_deg 3.034 r_mcbond_it 1.78 r_angle_other_deg 1.345 r_symmetry_vdw_other 0.347 r_nbtor_other 0.343 r_symmetry_vdw_refined 0.336 r_symmetry_hbond_refined 0.31 r_nbd_other 0.282 r_nbd_refined 0.28 r_xyhbond_nbd_refined 0.237 r_xyhbond_nbd_other 0.226 r_chiral_restr 0.201 r_symmetry_hbond_other 0.062 r_bond_refined_d 0.035 r_gen_planes_refined 0.013 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2485 Nucleic Acid Atoms Solvent Atoms 46 Heterogen Atoms 28
Software Software Software Name Purpose HKL-2000 data collection TRUNCATE data reduction MLPHARE phasing REFMAC refinement HKL-2000 data reduction CCP4 data scaling