☰ Navigation Tabs
Crystal structure of the HsdR subunit of the EcoR124I restriction enzyme in complex with ATP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 1 UL OF PROTEIN IN 20 MM PHOSPHATE PH 7.5, 100 MM KCL, 5 MM ATP WAS MIXED WITH 2 UL OF RESERVOIR, CONTAINING 0.2 M LI2SO4, 8 % PEG 20K, 8 % PEG 550 MME, 1.5 MM DTT, 277 K, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 3.1 60
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.91 α = 90 b = 129.922 β = 90 c = 161.01 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 MARRESEARCH MIRRORS 2006-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 EMBL/DESY, HAMBURG X12
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 2.6 20 100 0.13 17.9 9.4 80316 -3
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 2.6 2.64 100 0.5 5.8 9.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 SAD THROUGHOUT NONE 2.6 19.97 79250 977 100 0.221 0.221 0.2198 0.265 0.263 RANDOM 40.95
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] -0.04 0.01 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.133 r_dihedral_angle_4_deg 26.097 r_dihedral_angle_3_deg 21.712 r_dihedral_angle_1_deg 21.286 r_scangle_it 5.286 r_scbond_it 3.625 r_mcangle_it 2.036 r_angle_refined_deg 1.418 r_mcbond_it 1.391 r_nbtor_refined 0.335
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.133 r_dihedral_angle_4_deg 26.097 r_dihedral_angle_3_deg 21.712 r_dihedral_angle_1_deg 21.286 r_scangle_it 5.286 r_scbond_it 3.625 r_mcangle_it 2.036 r_angle_refined_deg 1.418 r_mcbond_it 1.391 r_nbtor_refined 0.335 r_symmetry_vdw_refined 0.329 r_nbd_refined 0.261 r_chiral_restr 0.214 r_symmetry_hbond_refined 0.179 r_bond_refined_d 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_refined r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_refined 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_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 13740 Nucleic Acid Atoms Solvent Atoms 582 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling Auto-Rickshaw phasing