☰ Navigation Tabs
Crystal Structure of Rh(nbd)/apo-Fr
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DAT PDB ENTRY 1DAT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.5M ammonium sulfate, 10mM cadmium sulfate, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.09 60.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 181.276 α = 90 b = 181.276 β = 90 c = 181.276 γ = 90
Symmetry Space Group F 4 3 2
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 ADSC QUANTUM 315 2006-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.5334 SPring-8 BL41XU
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 1.8 50 100 0.073 38.2 11.6 24236 18.6
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) 1.8 1.86 100 0.327 9.3 11.7
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 1DAT 1.8 37.01 22956 1250 99.97 0.1763 0.17521 0.1759 0.19618 0.195 RANDOM 19.801
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.565 r_dihedral_angle_4_deg 22.158 r_dihedral_angle_3_deg 13.896 r_sphericity_free 8.595 r_dihedral_angle_1_deg 4.389 r_scangle_it 3.562 r_scbond_it 2.194 r_angle_refined_deg 1.418 r_mcangle_it 1.29 r_mcbond_it 0.773
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.565 r_dihedral_angle_4_deg 22.158 r_dihedral_angle_3_deg 13.896 r_sphericity_free 8.595 r_dihedral_angle_1_deg 4.389 r_scangle_it 3.562 r_scbond_it 2.194 r_angle_refined_deg 1.418 r_mcangle_it 1.29 r_mcbond_it 0.773 r_nbtor_refined 0.304 r_nbd_refined 0.246 r_symmetry_vdw_refined 0.182 r_metal_ion_refined 0.177 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.101 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1469 Nucleic Acid Atoms Solvent Atoms 192 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection SCALEPACK data scaling MOLREP phasing