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Human beta-defensin-1 (Mutant Gln24Glu)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IJV PDB ENTRY 1IJV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 293 LITHIUM SULFATE, HEPES, pH 7.5, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.29 46.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.68 α = 90 b = 27.68 β = 113.6 c = 58.23 γ = 90
Symmetry Space Group C 1 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 IMAGE PLATE MAR scanner 345 mm plate Osmic mirrors 2005-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54178
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 1.85 40 96.4 0.058 27 6.2 12081 12081 -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) 1.85 1.92 94 0.304 6.1 6.1 1143
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1IJV 1.85 30 12078 12078 582 96.32 0.179 0.179 0.176 0.1768 0.237 RANDOM 23.923
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] -1.49 -1.07 1.19 -0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.603 r_dihedral_angle_4_deg 23.071 r_dihedral_angle_3_deg 13.861 r_dihedral_angle_1_deg 6.237 r_scangle_it 4.059 r_scbond_it 2.837 r_mcangle_it 1.781 r_angle_refined_deg 1.698 r_mcbond_it 1.12 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.603 r_dihedral_angle_4_deg 23.071 r_dihedral_angle_3_deg 13.861 r_dihedral_angle_1_deg 6.237 r_scangle_it 4.059 r_scbond_it 2.837 r_mcangle_it 1.781 r_angle_refined_deg 1.698 r_mcbond_it 1.12 r_nbtor_refined 0.306 r_nbd_refined 0.247 r_symmetry_vdw_refined 0.218 r_xyhbond_nbd_refined 0.21 r_symmetry_hbond_refined 0.199 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1084 Nucleic Acid Atoms Solvent Atoms 278 Heterogen Atoms 30
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing