☰ Navigation Tabs
I220V horse liver alcohol dehydrogenase complexed with NAD and pentafluorobenzyl alcohol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DWV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 7 278 50 MM AMMONIUM N-[TRIS(HYDROXYMETHYL)METHYL]-2-AMINOETHANE SULFONATE, PH 6.7 (AT 25 C), 0.25 MM EDTA,10 MG/ML PROTEIN, 1 MM NAD+, 10 MM 2,3,4,5,6-PENTAFLUOROBENZYL ALCOHOL, 12 TO 25 % 2-METHYL-2,4-PENTANEDIOL
Crystal Properties Matthews coefficient Solvent content 2.4 48.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.3 α = 91.92 b = 51.5 β = 103.09 c = 92.35 γ = 110.17
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 NOIR-1 2009-03-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.80 ALS 4.2.2
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 1.7 20 96.4 0.085 7 3.23 77459 21.2
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 1.7 1.744 94.4 0.344 2.3 3.15
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 4DWV 1.7 20 77459 1134 96.39 0.16273 0.16211 0.1742 0.20569 0.2199 RANDOM 23.112
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] -0.2 -0.27 0.31 1.36 -0.18 -1.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.453 r_dihedral_angle_4_deg 15.342 r_dihedral_angle_3_deg 13.316 r_dihedral_angle_1_deg 6.568 r_long_range_B_refined 5.982 r_long_range_B_other 5.553 r_scangle_other 4.103 r_scbond_it 2.774 r_scbond_other 2.774 r_mcangle_other 2.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.453 r_dihedral_angle_4_deg 15.342 r_dihedral_angle_3_deg 13.316 r_dihedral_angle_1_deg 6.568 r_long_range_B_refined 5.982 r_long_range_B_other 5.553 r_scangle_other 4.103 r_scbond_it 2.774 r_scbond_other 2.774 r_mcangle_other 2.328 r_mcangle_it 2.327 r_angle_refined_deg 2.039 r_mcbond_it 1.791 r_mcbond_other 1.79 r_angle_other_deg 0.955 r_chiral_restr 0.122 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5568 Nucleic Acid Atoms Solvent Atoms 838 Heterogen Atoms 134
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction d*TREK data scaling O model building REFMAC phasing