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Crystal structure of the hexameric anti-microbial peptide channel dermcidin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.2 M ZN(AC)2, 0.1 M NA-CACODYLATE, 18% PEG8000 AT PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.71 54.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.354 α = 90 b = 50.724 β = 117.74 c = 45.738 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 PIXEL DECTRIS PILATUS 6M M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 2.5 33 98.8 0.02 17 7.2 5189 2
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 2.5 2.56 96.8 0.51 2.95 7.1
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 SAD THROUGHOUT NONE 2.49 33.79 5189 252 98.82 0.20838 0.20466 0.2554 0.27384 0.2276 RANDOM 50.651
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] -50.26 42.34 21.97 28.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.181 r_dihedral_angle_3_deg 24.401 r_dihedral_angle_1_deg 7.754 r_scangle_it 3.784 r_angle_refined_deg 2.333 r_scbond_it 2.083 r_mcangle_it 1.613 r_mcbond_it 0.867 r_chiral_restr 0.127 r_bond_refined_d 0.023
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.181 r_dihedral_angle_3_deg 24.401 r_dihedral_angle_1_deg 7.754 r_scangle_it 3.784 r_angle_refined_deg 2.333 r_scbond_it 2.083 r_mcangle_it 1.613 r_mcbond_it 0.867 r_chiral_restr 0.127 r_bond_refined_d 0.023 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 980 Nucleic Acid Atoms Solvent Atoms 24 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling SHARP phasing DM phasing BUCCANEER phasing