☰ Navigation Tabs
Crystal structure of human alpha-defensin-6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Experimental phases
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 sodium acetate trihydrate, 2-Methyl-2,4-pentanediol, calcium chloride dehydrate, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.7 73.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.068 α = 90 b = 62.068 β = 90 c = 145.297 γ = 90
Symmetry Space Group P 41 21 2
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 MARRESEARCH 2004-06-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 0.9200 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.1 40 97.8 0.078 14.4 3.6 17013 17013
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.18 93.9 0.445 2 3.3
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 SAD THROUGHOUT Experimental phases 2.1 15 16138 16138 863 98.59 0.17757 0.17757 0.17677 0.184 0.19287 RANDOM 37.026
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.993 r_scangle_it 2.686 r_mcangle_it 2.131 r_angle_refined_deg 1.67 r_scbond_it 1.659 r_mcbond_it 1.29 r_xyhbond_nbd_refined 0.322 r_symmetry_hbond_refined 0.272 r_nbd_refined 0.27 r_symmetry_vdw_refined 0.266
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.993 r_scangle_it 2.686 r_mcangle_it 2.131 r_angle_refined_deg 1.67 r_scbond_it 1.659 r_mcbond_it 1.29 r_xyhbond_nbd_refined 0.322 r_symmetry_hbond_refined 0.272 r_nbd_refined 0.27 r_symmetry_vdw_refined 0.266 r_chiral_restr 0.113 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1020 Nucleic Acid Atoms Solvent Atoms 192 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling SHELXD phasing SHARP phasing