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Horse liver alcohol dehydrogenase complexed with NAD+ and 2,2,2-trifluoroethanol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HLD pdb entry 1HLD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 6.7 278 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+, 100 MM 2,2,2-TRIFLUOROETHANOL, 12 TO 25 % 2-METHYL-2,4-PENTANEDIOL, TEMPERATURE 278K, MICRODIALYSIS
Crystal Properties Matthews coefficient Solvent content 2.39 48.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.25 α = 91.91 b = 51.16 β = 103.02 c = 92.53 γ = 109.9
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 315r Rosenbaum Rock vertical focusing mirror with Pt, glass, Pd lanes 2009-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9184 APS 19-ID
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 1.12 20 94.3 0.046 9.7 4 283954 267668
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 1.12 1.16 91.4 0.365 2.1 4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1HLD 1.12 20 283954 266085 1352 94.14 0.12663 0.12653 0.1363 0.14672 0.1557 RANDOM 13.289
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] 0.16 -0.29 0.19 0.19 0.08 -0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.869 r_sphericity_free 31.449 r_dihedral_angle_4_deg 13.447 r_dihedral_angle_3_deg 11.191 r_sphericity_bonded 8.924 r_dihedral_angle_1_deg 6.142 r_scangle_it 4.798 r_scbond_it 3.155 r_rigid_bond_restr 2.948 r_mcangle_it 2.179
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.869 r_sphericity_free 31.449 r_dihedral_angle_4_deg 13.447 r_dihedral_angle_3_deg 11.191 r_sphericity_bonded 8.924 r_dihedral_angle_1_deg 6.142 r_scangle_it 4.798 r_scbond_it 3.155 r_rigid_bond_restr 2.948 r_mcangle_it 2.179 r_angle_refined_deg 1.636 r_mcbond_it 1.458 r_angle_other_deg 0.977 r_mcbond_other 0.502 r_chiral_restr 0.14 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5570 Nucleic Acid Atoms Solvent Atoms 1025 Heterogen Atoms 136
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection d*TREK data reduction d*TREK data scaling AMoRE phasing