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Crystal Structure of Human Iba2, trigonal crystal form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WY9 PDB ENTRY 1WY9
Crystallization Crystal Properties Matthews coefficient Solvent content 4 69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.53 α = 90 b = 70.53 β = 90 c = 95.19 γ = 120
Symmetry Space Group P 32 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 CCD MARRESEARCH MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 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 2.45 30 99.6 0.06 20.5 7.9 10457 3
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 2.45 2.58 99.9 0.65 3.5 8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1WY9 2.45 61.08 9931 500 99.5 0.205 0.204 0.232 0.2067 RANDOM 36.65
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] 0.74 0.37 0.74 -1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.905 r_dihedral_angle_3_deg 17.286 r_dihedral_angle_4_deg 16.471 r_dihedral_angle_1_deg 10.923 r_scangle_it 4.712 r_mcangle_it 4.232 r_scbond_it 3.185 r_mcbond_it 2.896 r_angle_refined_deg 1.667 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.905 r_dihedral_angle_3_deg 17.286 r_dihedral_angle_4_deg 16.471 r_dihedral_angle_1_deg 10.923 r_scangle_it 4.712 r_mcangle_it 4.232 r_scbond_it 3.185 r_mcbond_it 2.896 r_angle_refined_deg 1.667 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.24 r_nbd_refined 0.229 r_xyhbond_nbd_refined 0.154 r_symmetry_hbond_refined 0.149 r_chiral_restr 0.118 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 888 Nucleic Acid Atoms Solvent Atoms 38 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing