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Crystal Structure of Human Iba2, orthorhombic 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 3.36 50.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.54 α = 90 b = 186.5 β = 90 c = 51.42 γ = 90
Symmetry Space Group P 21 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 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 2.15 30 99.7 0.08 16.1 7.3 38251 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 2.15 2.25 100 0.75 3 7.4
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 PDB ENTRY 1WY9 2.15 19.81 36336 1913 100 0.218 0.216 0.2106 0.257 0.2509 RANDOM 38.08
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] -4.54 1.71 2.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.461 r_dihedral_angle_3_deg 17.772 r_dihedral_angle_4_deg 12.661 r_dihedral_angle_1_deg 5.693 r_scangle_it 4.139 r_scbond_it 2.666 r_angle_refined_deg 1.588 r_mcangle_it 1.503 r_mcbond_it 0.826 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.461 r_dihedral_angle_3_deg 17.772 r_dihedral_angle_4_deg 12.661 r_dihedral_angle_1_deg 5.693 r_scangle_it 4.139 r_scbond_it 2.666 r_angle_refined_deg 1.588 r_mcangle_it 1.503 r_mcbond_it 0.826 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.233 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.216 r_xyhbond_nbd_refined 0.184 r_chiral_restr 0.11 r_bond_refined_d 0.018 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 3401 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing