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Crystal structure of E. coli HypF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 0.1 M HEPES, pH 8.5, 20 mM magnesium chloride, 2.5% w/v isopropanol, 10% w/v ethylene glycol, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.53 51.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.329 α = 90 b = 77.677 β = 90 c = 199.89 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 RAYONIX MX-300 2010-10-04 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-1
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 2.05 99.945 46522
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.05 99.94 42110 2251 95.49 0.16117 0.15871 0.1605 0.20616 0.2082 RANDOM 18.514
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] -0.28 1.33 -1.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.72 r_dihedral_angle_3_deg 15.764 r_dihedral_angle_4_deg 15.313 r_dihedral_angle_1_deg 5.936 r_scangle_it 3.794 r_scbond_it 2.438 r_angle_refined_deg 1.566 r_mcangle_it 1.436 r_mcbond_it 0.875 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.72 r_dihedral_angle_3_deg 15.764 r_dihedral_angle_4_deg 15.313 r_dihedral_angle_1_deg 5.936 r_scangle_it 3.794 r_scbond_it 2.438 r_angle_refined_deg 1.566 r_mcangle_it 1.436 r_mcbond_it 0.875 r_nbtor_refined 0.304 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.173 r_xyhbond_nbd_refined 0.17 r_symmetry_hbond_refined 0.146 r_chiral_restr 0.124 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined 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 4922 Nucleic Acid Atoms Solvent Atoms 644 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MxDC data collection HKL-2000 data reduction HKL-2000 data scaling SHARP phasing