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Horse liver alcohol dehydrogense His-51-Gln form complexed with NAD+ and pyrazole
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N92
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7 278 10 mg/ml protein in 50 mM ammonium N-[tris(hydroxymethyl)methyl]-2-aminoethanesulfate buffer with 0.25 mM EDTA, 2 mM NAD+ and 15 mM pyrazole, 13 % 2-methyl-2,4-pentanediol, raised to 25% MPD before pliunging into liquid N2.
Crystal Properties Matthews coefficient Solvent content 2.24 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.13 α = 92.09 b = 50.8 β = 102.96 c = 92.41 γ = 109.68
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ confocal 2003-04-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.47 19.98 90.1 0.029 0.041 14.3 1.95 112102
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.47 1.52 83.1 0.248 0.351 1.92
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 1N92 1.47 19.99 110430 1659 90.08 0.17343 0.17317 0.1732 0.19092 0.1909 RANDOM 18.302
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] 0.07 -0.85 0.21 1.05 0.26 -0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.495 r_dihedral_angle_3_deg 12.017 r_dihedral_angle_4_deg 11.333 r_dihedral_angle_1_deg 6.818 r_long_range_B_refined 4.677 r_long_range_B_other 4.457 r_scangle_other 3.549 r_scbond_it 2.395 r_scbond_other 2.395 r_mcangle_it 1.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.495 r_dihedral_angle_3_deg 12.017 r_dihedral_angle_4_deg 11.333 r_dihedral_angle_1_deg 6.818 r_long_range_B_refined 4.677 r_long_range_B_other 4.457 r_scangle_other 3.549 r_scbond_it 2.395 r_scbond_other 2.395 r_mcangle_it 1.93 r_mcangle_other 1.93 r_angle_refined_deg 1.878 r_angle_other_deg 1.493 r_mcbond_it 1.41 r_mcbond_other 1.409 r_chiral_restr 0.096 r_bond_refined_d 0.013 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 696 Heterogen Atoms 118
Software Software Software Name Purpose d*TREK data scaling REFMAC refinement d*TREK data reduction REFMAC phasing