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Crystal structure of ABBA+UDP+Gal with Glycerol 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 30% glycerol as cryoprotectant, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.28 46.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.54 α = 90 b = 149.45 β = 90 c = 79.62 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 2008-05-13 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 1.42 74.744 98.2 0.03 22.1 4.07 58371
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 1.42 1.47 95.5 0.295 3.3 2.9 5606
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 1.42 20 58370 2945 98.18 0.206 0.2049 0.1919 0.2281 0.2124 RANDOM 20.7654
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] -0.38 0.24 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.51 r_dihedral_angle_4_deg 19.576 r_dihedral_angle_3_deg 14.268 r_dihedral_angle_1_deg 6.516 r_scangle_it 5.262 r_scbond_it 3.491 r_angle_refined_deg 2.491 r_mcangle_it 2.412 r_mcbond_it 1.512 r_chiral_restr 0.172
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.51 r_dihedral_angle_4_deg 19.576 r_dihedral_angle_3_deg 14.268 r_dihedral_angle_1_deg 6.516 r_scangle_it 5.262 r_scbond_it 3.491 r_angle_refined_deg 2.491 r_mcangle_it 2.412 r_mcbond_it 1.512 r_chiral_restr 0.172 r_bond_refined_d 0.032 r_gen_planes_refined 0.016
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2347 Nucleic Acid Atoms Solvent Atoms 319 Heterogen Atoms 51
Software Software Software Name Purpose d*TREK data reduction REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data scaling MOLREP phasing