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XChem group deposition -- Crystal Structure of human ACVR1 in complex with HM000007h
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6SRH 6SRH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 277 0.1M citrate pH 6.0, 1.4M ammonium sulfate, 0.2M sodium/potassium tartrate
Crystal Properties Matthews coefficient Solvent content 2.61 52.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.074 α = 90 b = 85.085 β = 130.83 c = 88.237 γ = 90
Symmetry Space Group C 1 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 PIXEL DECTRIS PILATUS 6M 2020-01-17 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9762 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.33 66.84 75.4 0.053 1 18.1 122012
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.33 1.35 11.9 1.356 0.24 967
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 FOURIER SYNTHESIS THROUGHOUT 6SRH 1.33 66.76 115899 6113 75.03 0.1635 0.1623 0.1627 0.1856 0.1855 RANDOM 19.733
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] -0.38 -0.23 -0.23 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.445 r_dihedral_angle_4_deg 19.96 r_dihedral_angle_3_deg 11.746 r_dihedral_angle_1_deg 6.804 r_mcangle_it 2.784 r_angle_refined_deg 1.936 r_mcbond_other 1.856 r_mcbond_it 1.855 r_angle_other_deg 1.509 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.445 r_dihedral_angle_4_deg 19.96 r_dihedral_angle_3_deg 11.746 r_dihedral_angle_1_deg 6.804 r_mcangle_it 2.784 r_angle_refined_deg 1.936 r_mcbond_other 1.856 r_mcbond_it 1.855 r_angle_other_deg 1.509 r_chiral_restr 0.103 r_bond_refined_d 0.014 r_gen_planes_refined 0.012 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4553 Nucleic Acid Atoms Solvent Atoms 829 Heterogen Atoms 274
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing