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crystal structure of alpha-momorcharin in complex with xanthosine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F8Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 0.2 M Magnesium Acetate, 20% PEG 8000, 0.1 M Sodium cacodylate, pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.06 40.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.53 α = 90 b = 130.53 β = 90 c = 39.737 γ = 120
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 MARMOSAIC 300 mm CCD 2007-12-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.349 50 94.1 0.077 0.987 8.9 3.2 52296
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.4 0.745 0.658 2.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1F8Q 1.35 18.847 52296 2608 93.971 0.232 0.2308 0.24 0.2585 0.2669 26.356
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] -0.817 -0.409 -0.817 2.651
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.648 r_dihedral_angle_4_deg 22.44 r_dihedral_angle_3_deg 13.099 r_dihedral_angle_1_deg 5.924 r_lrange_it 5.278 r_lrange_other 4.953 r_scangle_it 2.489 r_scangle_other 2.488 r_angle_refined_deg 1.703 r_mcangle_it 1.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.648 r_dihedral_angle_4_deg 22.44 r_dihedral_angle_3_deg 13.099 r_dihedral_angle_1_deg 5.924 r_lrange_it 5.278 r_lrange_other 4.953 r_scangle_it 2.489 r_scangle_other 2.488 r_angle_refined_deg 1.703 r_mcangle_it 1.68 r_mcangle_other 1.68 r_scbond_it 1.624 r_scbond_other 1.624 r_angle_other_deg 1.421 r_mcbond_it 1.099 r_mcbond_other 1.097 r_symmetry_nbd_refined 0.333 r_nbd_other 0.241 r_symmetry_xyhbond_nbd_refined 0.233 r_nbd_refined 0.206 r_symmetry_nbd_other 0.182 r_nbtor_refined 0.169 r_xyhbond_nbd_refined 0.138 r_symmetry_nbtor_other 0.082 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1916 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing