☰ Navigation Tabs
Firefly luciferase apo structure (P41 form) with PEG 400 bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IEP PDB entry 3IEP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 277 25% PEG 400, 20% PEG 3350, 0.1M MgCl2, 0.1M Tris-HCl, pH 8.5, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.82 56.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.233 α = 90 b = 84.233 β = 90 c = 96.905 γ = 90
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 210 2009-03-13 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-BM 1.0000 APS 17-BM
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 99.6 0.123 0.123 11.075 4.9 42128 -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) 2.05 2.12 98.7 0.479 0.479 2.19 4.2
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 3IEP 2.05 50 42128 2129 99.42 0.185 0.183 0.1902 0.225 0.2337 RANDOM 23.931
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] 0.77 0.77 -1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.506 r_dihedral_angle_4_deg 15.904 r_dihedral_angle_3_deg 14.94 r_dihedral_angle_1_deg 6.107 r_scangle_it 4.559 r_scbond_it 2.888 r_mcangle_it 2.057 r_angle_refined_deg 1.926 r_mcbond_it 1.195 r_angle_other_deg 0.816
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.506 r_dihedral_angle_4_deg 15.904 r_dihedral_angle_3_deg 14.94 r_dihedral_angle_1_deg 6.107 r_scangle_it 4.559 r_scbond_it 2.888 r_mcangle_it 2.057 r_angle_refined_deg 1.926 r_mcbond_it 1.195 r_angle_other_deg 0.816 r_mcbond_other 0.324 r_chiral_restr 0.115 r_bond_refined_d 0.023 r_gen_planes_refined 0.011 r_bond_other_d r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3360 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 10
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection