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Crystal structure of the Cyanobacterium circadian clock modifier Pex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.2 293 0.5-1.0M Li2SO4, 0.1M sodium acetate buffer (pH 3.8~4.6), 50mM magnesium acetate, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.11 41.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.153 α = 90 b = 61.539 β = 90 c = 75.676 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 ADSC QUANTUM 315 undulator 2006-01-25 M MAD 2 1 x-ray 100 CCD ADSC QUANTUM 315 undulator 2006-01-25 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 0.97931, 0.97820, 0.96408, 0.98319 Photon Factory BL-5A 2 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1 Photon Factory BL-5A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.8 32.2 98.2 0.058 0.058 24920 24505 1 1
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) 1,2 1.8 1.86 85.3 0.424
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.8 32.2 1 1 24920 23649 1269 98.2 0.2356 0.19789 0.19602 0.236 0.2678 RANDOM 33.343
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] 0.63 -1.14 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.66 r_dihedral_angle_4_deg 15.157 r_dihedral_angle_3_deg 14.876 r_dihedral_angle_1_deg 5.084 r_scangle_it 4.733 r_scbond_it 3.742 r_mcbond_it 1.916 r_mcangle_it 1.835 r_angle_refined_deg 1.461 r_angle_other_deg 0.871
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.66 r_dihedral_angle_4_deg 15.157 r_dihedral_angle_3_deg 14.876 r_dihedral_angle_1_deg 5.084 r_scangle_it 4.733 r_scbond_it 3.742 r_mcbond_it 1.916 r_mcangle_it 1.835 r_angle_refined_deg 1.461 r_angle_other_deg 0.871 r_symmetry_vdw_other 0.321 r_mcbond_other 0.258 r_nbd_refined 0.228 r_symmetry_vdw_refined 0.208 r_nbd_other 0.2 r_xyhbond_nbd_refined 0.199 r_nbtor_refined 0.195 r_symmetry_hbond_refined 0.18 r_chiral_restr 0.091 r_nbtor_other 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1898 Nucleic Acid Atoms Solvent Atoms 144 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling SOLVE phasing