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Crystal structure of human beta-defensin 2 in complex with PIP2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FD4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.38 293.15 0.697M Sodium-malonate-malonic acid, 0.1M glycine-glycine, pH 8.38
Crystal Properties Matthews coefficient Solvent content 1.92 35.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.871 α = 90 b = 25.538 β = 98.64 c = 40.17 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 ADSC QUANTUM 210r 2016-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 39.71 98.4 0.068 0.081 0.043 0.997 10.5 3.5 5703 28.91
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.89 87 0.783 1.01 0.623 0.509 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 1FD4 1.85 39.714 1.35 5693 299 97.99 0.1964 0.1947 0.1981 0.2267 0.237 RANDOM 36.2562
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 598 Nucleic Acid Atoms Solvent Atoms 28 Heterogen Atoms 94
Software Software Software Name Purpose PHENIX refinement Aimless data scaling PHASER phasing XDS data reduction Coot model building