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Female-specific Histamine-Binding Protein, D24R Mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QFT pdb entry 1QFT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 290 Protein at 10 mg/ml mixed in a 1:1 ratio with reservoir containing: 2.6 M Ammonium Sulphate, 0.1 M Bicine, pH 8.2, and 10 % isopropanol, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.55 51.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.963 α = 90 b = 56.61 β = 107.08 c = 63.801 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 IMAGE PLATE RIGAKU RAXIS IV++ mirrors 2008-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.54
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 12 99.3 0.09 15.7 4 18800 1 1 34.75
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) 2.25 2.37 100 0.3 4.1 4 2735
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 1QFT 2.25 11.96 18787 933 99.99 0.232 0.229 0.2401 0.286 0.2801 RANDOM 46.094
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] 0.67 0.81 -0.52 0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.736 r_dihedral_angle_3_deg 16.778 r_dihedral_angle_4_deg 11.137 r_dihedral_angle_1_deg 5.993 r_mcangle_it 1.843 r_scangle_it 1.383 r_angle_refined_deg 1.279 r_mcbond_it 1.094 r_scbond_it 0.892 r_angle_other_deg 0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.736 r_dihedral_angle_3_deg 16.778 r_dihedral_angle_4_deg 11.137 r_dihedral_angle_1_deg 5.993 r_mcangle_it 1.843 r_scangle_it 1.383 r_angle_refined_deg 1.279 r_mcbond_it 1.094 r_scbond_it 0.892 r_angle_other_deg 0.78 r_mcbond_other 0.189 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2762 Nucleic Acid Atoms Solvent Atoms 201 Heterogen Atoms
Software Software Software Name Purpose d*TREK data scaling SCALA data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection MOSFLM data reduction