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Horse alcohol dehydrogenase complexed with NAD+ and 2,3,4,5,6-pentafluorobenzyl alcohol
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+, 10 mm 2,3,4,5,6-pentafluorobenzyl alcohol, 12 to 25 % 2-methyl-2,4-pentanediol, MICRODIALYSIS, temperature 278k
Crystal Properties Matthews coefficient Solvent content 2.4 48.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.29 α = 91.72 b = 51.44 β = 103.09 c = 92.49 γ = 110.11
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 MARMOSAIC 300 mm CCD ADJUSTABLE FOCUS K-B PAIR SI PLUS PT, RH COATINGS 2006-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.9537 APS 23-ID-D
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 1.14 20 93.7 0.065 12.9 4.75 270489 253394 1 1
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 1.14 1.18 84.5 0.264 3.2 3.74
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1HLD 1.14 20 270489 250826 2572 93.65 0.12406 0.12387 0.14373 0.1726 RANDOM 14.926
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] 0.11 -0.5 0.21 0.26 -0.06 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.256 r_sphericity_free 31.716 r_dihedral_angle_4_deg 13.883 r_dihedral_angle_3_deg 11.32 r_sphericity_bonded 9.439 r_dihedral_angle_1_deg 6.24 r_scangle_it 4.734 r_rigid_bond_restr 3.422 r_scbond_it 3.168 r_mcangle_it 2.191
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.256 r_sphericity_free 31.716 r_dihedral_angle_4_deg 13.883 r_dihedral_angle_3_deg 11.32 r_sphericity_bonded 9.439 r_dihedral_angle_1_deg 6.24 r_scangle_it 4.734 r_rigid_bond_restr 3.422 r_scbond_it 3.168 r_mcangle_it 2.191 r_angle_refined_deg 1.673 r_mcbond_it 1.479 r_angle_other_deg 1.003 r_mcbond_other 0.521 r_chiral_restr 0.102 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.002 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 1040 Heterogen Atoms 150
Software Software Software Name Purpose ADSC data collection AMoRE phasing REFMAC refinement d*TREK data reduction d*TREK data scaling