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Human beta-defensin-1 (Mutant Lys31Ala)
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 293 PEG 8000, AMMONIUM SULFATE, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.33 47.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.89 α = 90 b = 27.68 β = 113.5 c = 58.26 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 2005-05-10 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 1.8 30 96.5 0.066 17 3.2 13163 13163 -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 1.8 1.86 76.6 0.39 2.3 1032
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 1.8 30 13161 13161 654 96.47 0.183 0.183 0.179 0.1779 0.257 RANDOM 23.51
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] -1.23 -0.48 1.35 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.35 r_dihedral_angle_4_deg 19.291 r_dihedral_angle_3_deg 14.204 r_dihedral_angle_1_deg 6.266 r_scangle_it 3.654 r_scbond_it 2.607 r_mcangle_it 1.745 r_angle_refined_deg 1.612 r_mcbond_it 1.066 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.35 r_dihedral_angle_4_deg 19.291 r_dihedral_angle_3_deg 14.204 r_dihedral_angle_1_deg 6.266 r_scangle_it 3.654 r_scbond_it 2.607 r_mcangle_it 1.745 r_angle_refined_deg 1.612 r_mcbond_it 1.066 r_nbtor_refined 0.306 r_nbd_refined 0.245 r_symmetry_vdw_refined 0.225 r_symmetry_hbond_refined 0.206 r_xyhbond_nbd_refined 0.191 r_chiral_restr 0.104 r_bond_refined_d 0.018 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1068 Nucleic Acid Atoms Solvent Atoms 266 Heterogen Atoms 36
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