☰ Navigation Tabs
Structure of actinorhodin polyketide (actIII) Reductase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EDO PDB ENTRY 1EDO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MOTHER LIQUOR 5 MG ML-1 PROTEIN AND 5 MM NADP IN 25 MM PHOSPHATE BUFFER PH 8 WITH 10%(V/V) GLYCEROL RESERVOIR SOLUTION 4.0-4.4 M SODIUM FORMATE
Crystal Properties Matthews coefficient Solvent content 3.3 62.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.43 α = 90 b = 103.43 β = 90 c = 122.823 γ = 120
Symmetry Space Group P 32 2 1
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 CCD 2003-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.2 SRS PX14.2
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 2.5 30 99.8 0.07 20 6.5 25371
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 2.5 30 100 0.45 3.9
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 1EDO 2.5 30 25371 1352 99.8 0.185 0.183 0.1792 0.218 0.212 RANDOM 45.91
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] 1.64 0.82 1.64 -2.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.81 r_scangle_it 6.495 r_scbond_it 4.092 r_dihedral_angle_1_deg 3.918 r_mcangle_it 2.408 r_angle_refined_deg 1.715 r_mcbond_it 1.232 r_nbd_refined 0.236 r_symmetry_vdw_refined 0.231 r_symmetry_hbond_refined 0.221
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.81 r_scangle_it 6.495 r_scbond_it 4.092 r_dihedral_angle_1_deg 3.918 r_mcangle_it 2.408 r_angle_refined_deg 1.715 r_mcbond_it 1.232 r_nbd_refined 0.236 r_symmetry_vdw_refined 0.231 r_symmetry_hbond_refined 0.221 r_xyhbond_nbd_refined 0.143 r_chiral_restr 0.106 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3790 Nucleic Acid Atoms Solvent Atoms 42 Heterogen Atoms 123
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing