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horse liver alcohol dehydrogenae complexed with NADH (R,S)-N-1-methylhexylformamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P1R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 7 278 10 mg protein/ml dialyzed against 50 mM ammonium N-[tris(hydroxymethyl)methyl]-2-aminoethanesulfonate buffer, pH 7 (pH 6.7 at 25 deg C) with 1 mM NADH and 10 mM (racemic) (R,S)-N-1-methylhexylformamide as the concentration of 2-methyl-2,4-pentanediol was raised to 25%. Crystal on loop plunged into liquid N2.
Crystal Properties Matthews coefficient Solvent content 2.38 48.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.212 α = 90 b = 180.808 β = 106.12 c = 86.841 γ = 90
Symmetry Space Group P 1 21 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 MAR CCD 165 mm 1999-03-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.936 ESRF ID14-4
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 1.2 20 83.8 0.122 0.151 5.77 1.762 386016 -3
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 1.2 1.25 67.5 0.318 0.426 2.2 1.518
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 1p1r 1.25 20 325043 1650 80.01 0.1517 0.1515 0.152 0.1866 0.1869 RANDOM 25.461
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] 1.71 0.28 -1.4 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.372 r_sphericity_free 18.984 r_dihedral_angle_4_deg 14.312 r_dihedral_angle_3_deg 11.536 r_sphericity_bonded 7.418 r_dihedral_angle_1_deg 6.276 r_rigid_bond_restr 2.976 r_angle_refined_deg 1.885 r_angle_other_deg 1.063 r_chiral_restr 0.122
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.372 r_sphericity_free 18.984 r_dihedral_angle_4_deg 14.312 r_dihedral_angle_3_deg 11.536 r_sphericity_bonded 7.418 r_dihedral_angle_1_deg 6.276 r_rigid_bond_restr 2.976 r_angle_refined_deg 1.885 r_angle_other_deg 1.063 r_chiral_restr 0.122 r_bond_refined_d 0.017 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11140 Nucleic Acid Atoms Solvent Atoms 1329 Heterogen Atoms 250
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction X-PLOR phasing O model building