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Fv IgE SPE-7 in complex with Alizarin Red
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB PDB ENTRY 1ANQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 21% PEG 8K, 0.1M NA CACODYLATE, 0.2M NA ACETATE PH5.5, pH 5.00
Crystal Properties Matthews coefficient Solvent content 1.5 70
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.917 α = 90 b = 78.882 β = 90 c = 169.036 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH MIRRORS 2000-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
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 2.25 35.8 99.6 0.067 13.7 26942 2
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-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 1ANQ 2.23 33.71 49572 2666 100 0.205 0.235 0.241 0.2308 RANDOM 52.44
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] 0.35 0.23 -0.58
RMS Deviations Key Refinement Restraint Deviation r_chiral_restr 7.464 r_scangle_it 7.136 r_scbond_it 5.024 r_angle_other_deg 3.995 r_mcangle_it 3.535 r_mcbond_it 2.172 r_dihedral_angle_3_deg 2.142 r_nbd_refined 0.632 r_symmetry_vdw_other 0.379 r_nbd_other 0.37
RMS Deviations Key Refinement Restraint Deviation r_chiral_restr 7.464 r_scangle_it 7.136 r_scbond_it 5.024 r_angle_other_deg 3.995 r_mcangle_it 3.535 r_mcbond_it 2.172 r_dihedral_angle_3_deg 2.142 r_nbd_refined 0.632 r_symmetry_vdw_other 0.379 r_nbd_other 0.37 r_symmetry_hbond_refined 0.308 r_xyhbond_nbd_refined 0.243 r_symmetry_vdw_refined 0.23 r_bond_refined_d 0.207 r_nbtor_other 0.12 r_bond_other_d 0.092 r_gen_planes_refined 0.022 r_gen_planes_other 0.016 r_angle_refined_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 6482 Nucleic Acid Atoms Solvent Atoms 352 Heterogen Atoms 216
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing