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X-ray structure of viscotoxin B2 from Viscum album
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 1UL HANGING DROP, 30 MG/ML PROTEIN, 0.2M AMSO4, 0.08M CACODYLATE PH 6.5, 25% PEG20000
Crystal Properties Matthews coefficient Solvent content 1.7 30
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.819 α = 90 b = 40.392 β = 90 c = 44.694 γ = 90
Symmetry Space Group P 21 21 21
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 2003-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 EMBL/DESY, HAMBURG X13
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 1.15 20 99.8 0.06 25.8 21.34 34317 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 1.05 1.15 99.6 0.22 12.6 21
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION DIRECT METHODS THROUGHOUT NONE 1.05 40 12 35151 1833 99.8 0.1277 0.1703 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 14 646 795
RMS Deviations Key Refinement Restraint Deviation s_anti_bump_dis_restr 0.114 s_non_zero_chiral_vol 0.106 s_approx_iso_adps 0.092 s_zero_chiral_vol 0.08 s_similar_adp_cmpnt 0.044 s_angle_d 0.034 s_from_restr_planes 0.0285 s_bond_d 0.019 s_similar_dist 0.016 s_rigid_bond_adp_cmpnt 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 664 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 30
Software Software Software Name Purpose SHELXL-97 refinement DENZO data reduction SADABS data scaling SHELXD phasing