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NUDIX hydrolase from Nitrosomonas europaea.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 291 3.2 M NaCl, 0.1 M sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2 37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.45 α = 90 b = 66.509 β = 90 c = 73.812 γ = 90
Symmetry Space Group C 2 2 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 ADSC QUANTUM 315 2005-07-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97945 APS 19-ID
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 1.55 40 81.9 0.066 33.5 8.1 20171 16520
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 1.55 1.58 22.8 0.331 2.59 2.1 281
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 (All) 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 1.55 40 16498 16498 1681 81.97 0.1677 0.1677 0.1669 0.1669 0.2063 0.1713 RANDOM 21.39
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] -1.43 1.76 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.791 r_dihedral_angle_4_deg 22.465 r_dihedral_angle_3_deg 14.047 r_dihedral_angle_1_deg 6.253 r_scangle_it 4.184 r_scbond_it 2.666 r_mcangle_it 1.822 r_angle_refined_deg 1.522 r_mcbond_it 1.028 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.791 r_dihedral_angle_4_deg 22.465 r_dihedral_angle_3_deg 14.047 r_dihedral_angle_1_deg 6.253 r_scangle_it 4.184 r_scbond_it 2.666 r_mcangle_it 1.822 r_angle_refined_deg 1.522 r_mcbond_it 1.028 r_nbtor_refined 0.312 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.179 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.119 r_symmetry_metal_ion_refined 0.086 r_metal_ion_refined 0.063 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other 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 1175 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing