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Crystal structure of kiwellin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3D30
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.1 M HEPES, 0.05 M KSCN, 27% PEG 2000 MME
Crystal Properties Matthews coefficient Solvent content 2.14 42.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.42 α = 90 b = 59.7 β = 97.45 c = 54.55 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 315r 2012-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9794 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.05 40.08 96.9 0.14 0.151 0.056 9.9 7 20381 20381 23.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.16 96.3 0.657 0.657 0.709 0.264 3 6.9 2934
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 MOLECULAR REPLACEMENT THROUGHOUT 3D30 2.05 40.08 20350 1034 96.39 0.195 0.1933 0.2013 0.2239 0.228 RANDOM 36.5693
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] -1.71 0.84 -3.48 4.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.019 r_dihedral_angle_4_deg 16.425 r_dihedral_angle_3_deg 13.029 r_dihedral_angle_1_deg 6.685 r_mcangle_it 4.072 r_mcbond_it 2.583 r_mcbond_other 2.57 r_angle_refined_deg 1.355 r_angle_other_deg 0.849 r_chiral_restr 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.019 r_dihedral_angle_4_deg 16.425 r_dihedral_angle_3_deg 13.029 r_dihedral_angle_1_deg 6.685 r_mcangle_it 4.072 r_mcbond_it 2.583 r_mcbond_other 2.57 r_angle_refined_deg 1.355 r_angle_other_deg 0.849 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2181 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHENIX phasing