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Crystal structure of E. coli HypF with AMP-PNP and carbamoyl phosphate
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 2.46 50.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.329 α = 90 b = 75.051 β = 90 c = 201.321 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 SINGLE WAVELENGTH
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 1.92 100.66 54251
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 MOLECULAR REPLACEMENT THROUGHOUT 1.92 100.66 43779 2343 84.85 0.20174 0.19934 0.2134 0.24813 0.2595 RANDOM 37.562
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] 0.24 0.31 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.568 r_dihedral_angle_3_deg 16.902 r_dihedral_angle_4_deg 15.66 r_dihedral_angle_1_deg 6.459 r_scangle_it 4.758 r_angle_other_deg 3.462 r_scbond_it 3.133 r_angle_refined_deg 2.103 r_mcangle_it 1.894 r_mcbond_it 1.035
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.568 r_dihedral_angle_3_deg 16.902 r_dihedral_angle_4_deg 15.66 r_dihedral_angle_1_deg 6.459 r_scangle_it 4.758 r_angle_other_deg 3.462 r_scbond_it 3.133 r_angle_refined_deg 2.103 r_mcangle_it 1.894 r_mcbond_it 1.035 r_nbtor_refined 0.308 r_xyhbond_nbd_refined 0.218 r_symmetry_hbond_refined 0.202 r_symmetry_vdw_refined 0.196 r_chiral_restr 0.141 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined 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 219 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MxDC data collection