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Crystal structure of BA2930 in complex with AcCoA and uracil
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IJW PDB entry 3IJW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.1M HEPES, 17% w/v PEG3350, 0.1M MgCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.21 44.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.716 α = 90 b = 109.996 β = 90 c = 133.072 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-225 beryllium lenses 2010-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.9787 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.05 50 99.4 0.124 0.124 19.4 6.5 34755 34755 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.09 93.8 0.555 0.555 2.1 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT PDB entry 3IJW 2.05 50 32867 32867 1733 99.39 0.19237 0.18966 0.2074 0.24547 0.2574 RANDOM 31.499
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] 0.01 -0.54 0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.582 r_dihedral_angle_4_deg 18.643 r_dihedral_angle_3_deg 14.785 r_dihedral_angle_1_deg 6.12 r_scangle_it 3.31 r_scbond_it 2.207 r_angle_refined_deg 1.341 r_mcangle_it 1.069 r_angle_other_deg 0.859 r_mcbond_it 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.582 r_dihedral_angle_4_deg 18.643 r_dihedral_angle_3_deg 14.785 r_dihedral_angle_1_deg 6.12 r_scangle_it 3.31 r_scbond_it 2.207 r_angle_refined_deg 1.341 r_mcangle_it 1.069 r_angle_other_deg 0.859 r_mcbond_it 0.55 r_mcbond_other 0.138 r_chiral_restr 0.07 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4087 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 115
Software Software Software Name Purpose MD2 data collection HKL-3000 phasing MOLREP phasing REFMAC refinement Coot model building HKL-3000 data reduction HKL-3000 data scaling