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Co-structure of AMA1 with a surface exposed region of RON2 from Toxoplasma gondii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2X2Z PDB ENTRY 2X2Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 25% PEG 1500, 100 MM MIB PH 4.0 .
Crystal Properties Matthews coefficient Solvent content 2.3 46.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.86 α = 90 b = 96.38 β = 115.64 c = 78.35 γ = 90
Symmetry Space Group P 1 21 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 MARMOSAIC 225 mm CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 CLSI 08ID-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 1.95 45 100 0.1 10.6 4.6 68179 2
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 1.95 2.06 99.9 0.48 3.7 4.5
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 2X2Z 1.95 39.81 64686 3453 99.95 0.173 0.17013 0.1706 0.22804 0.2297 RANDOM 23.694
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.638 r_dihedral_angle_4_deg 19.334 r_dihedral_angle_3_deg 17.542 r_dihedral_angle_1_deg 7.433 r_scangle_it 6.092 r_scbond_it 3.911 r_mcangle_it 2.549 r_angle_refined_deg 1.943 r_mcbond_it 1.469 r_chiral_restr 0.213
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.638 r_dihedral_angle_4_deg 19.334 r_dihedral_angle_3_deg 17.542 r_dihedral_angle_1_deg 7.433 r_scangle_it 6.092 r_scbond_it 3.911 r_mcangle_it 2.549 r_angle_refined_deg 1.943 r_mcbond_it 1.469 r_chiral_restr 0.213 r_bond_refined_d 0.02 r_gen_planes_refined 0.013 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 6672 Nucleic Acid Atoms Solvent Atoms 604 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement