☰ Navigation Tabs
Crystal structure of ABBB+UDP+Gal with MPD as the cryoprotectant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LZ7 PDB ENTRY 1LZ7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 298 1% PEG4000, 5% MPD, 100 mM ammonium sulfate, 70 mM sodium chloride, 50 mM ADA, pH 7.6, 30 mM sodium acetate, pH 4.6, 5 mM manganese chloride, with 20% MPD as cryoprotectant, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.28 46.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.59 α = 90 b = 149.84 β = 90 c = 79.44 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 IMAGE PLATE RIGAKU RAXIS OSMIC BLUE MIRRORS 2008-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-002 1.54
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 1.49 74.953 95.5 0.032 20.6 4.28 49296
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 1.49 1.54 93.5 0.265 4.1 3.58 4771
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1LZ7 1.49 20 49296 2496 95.46 0.1953 0.1938 0.1864 0.2214 0.2139 RANDOM 21.0097
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] -0.27 0.3 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.599 r_dihedral_angle_4_deg 18.316 r_dihedral_angle_3_deg 14.379 r_dihedral_angle_1_deg 6.693 r_scangle_it 5.618 r_scbond_it 3.803 r_angle_refined_deg 2.562 r_mcangle_it 2.465 r_mcbond_it 1.539 r_chiral_restr 0.175
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.599 r_dihedral_angle_4_deg 18.316 r_dihedral_angle_3_deg 14.379 r_dihedral_angle_1_deg 6.693 r_scangle_it 5.618 r_scbond_it 3.803 r_angle_refined_deg 2.562 r_mcangle_it 2.465 r_mcbond_it 1.539 r_chiral_restr 0.175 r_bond_refined_d 0.032 r_gen_planes_refined 0.016
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2254 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 45
Software Software Software Name Purpose d*TREK data reduction REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data scaling MOLREP phasing