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N,N'-diacetylchitobiose deacetylase (Se-derivative) from Pyrococcus furiosus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 0.1M Tris-HCl (pH 8.0), 0.2M MgCl2, 3.4M 1,6-hexanediol, 5mM CdCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4 69.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.894 α = 90 b = 113.894 β = 90 c = 201.029 γ = 120
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 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 0.99522, 0.97910, 0.97949 SPring-8 BL38B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.54 50 99.8 147090 143526 5 5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.54 1.57 100
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.54 26.4 136328 136328 7197 99.85 0.15439 0.15362 0.16888 0.1828 RANDOM 22.158
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_2_deg 34.832 r_dihedral_angle_4_deg 17.339 r_dihedral_angle_3_deg 11.918 r_scangle_it 6.529 r_dihedral_angle_1_deg 6.051 r_scbond_it 4.56 r_angle_refined_deg 3.254 r_mcangle_it 2.605 r_mcbond_it 1.749 r_chiral_restr 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.832 r_dihedral_angle_4_deg 17.339 r_dihedral_angle_3_deg 11.918 r_scangle_it 6.529 r_dihedral_angle_1_deg 6.051 r_scbond_it 4.56 r_angle_refined_deg 3.254 r_mcangle_it 2.605 r_mcbond_it 1.749 r_chiral_restr 0.35 r_bond_refined_d 0.04 r_gen_planes_refined 0.018 r_bond_other_d r_angle_other_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 4380 Nucleic Acid Atoms Solvent Atoms 321 Heterogen Atoms 240
Software Software Software Name Purpose HKL-2000 data collection SOLVE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling