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Alanine racemase bound with N-(5'-phosphopyridoxyl)-D-alanine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L6F PDB 1L6F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 PEG 4000, sodium acetate, Tris-buffer, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.21 44.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.787 α = 90 b = 90.714 β = 90 c = 85.27 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 AREA DETECTOR SIEMENS HI-STAR carbon monochrometer 1998-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE MACSCIENCE 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.94 38.76 86.87 0.077 6.67 4 50473 50473 7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.939 2.009 76.1 0.496 1.64 1.81 5583
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB 1L6F 2 7.99 2 39514 3982 75.9 0.169 0.169 0.216 RANDOM 22.7
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] -0.08 2.57 -2.49
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.6 c_scangle_it 4.78 c_scbond_it 3.46 c_mcangle_it 2.9 c_mcbond_it 2 c_angle_deg 1.3 c_improper_angle_d 0.69 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6066 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms 42
Software Software Software Name Purpose SAINT data scaling SAINT data reduction X-PLOR model building CNS refinement X-PLOR phasing