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Bacuills anthracis Dihydrofolate Reductase bound propargyl-linked TMP analog, UCP1021
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3E0B PDB entry 3E0B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 initial crystal hits were grown in 27.5% (w/v) PEG 10,000, 0.1 M MES, pH 6.50, at an equal ratio of protein to crystallization solution. Microseeding was used to obtain isolated crystals in 10% (w/v) PEG 10,000 and 0.1 MES, pH 6.50 at a protein concentration of 5 mg/mL, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.61 52.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.094 α = 90 b = 78.094 β = 90 c = 67.07 γ = 90
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++ 2010-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 42.63 99.3 0.138 0.138 5.2 3.2 13990 13990 5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.57 98.6 0.383 0.383 2.4 3.3 966
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 3E0B 2.5 42.63 3 13963 13963 699 99.08 0.2304 0.2304 0.229 0.2217 0.257 0.2503 RANDOM 30.7904
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.242 r_dihedral_angle_3_deg 15.306 r_dihedral_angle_4_deg 11.501 r_dihedral_angle_1_deg 6.113 r_scangle_it 2.156 r_angle_refined_deg 1.337 r_scbond_it 1.281 r_mcangle_it 1.076 r_mcbond_it 0.565 r_chiral_restr 0.087
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.242 r_dihedral_angle_3_deg 15.306 r_dihedral_angle_4_deg 11.501 r_dihedral_angle_1_deg 6.113 r_scangle_it 2.156 r_angle_refined_deg 1.337 r_scbond_it 1.281 r_mcangle_it 1.076 r_mcbond_it 0.565 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2750 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 150
Software Software Software Name Purpose d*TREK data scaling SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction d*TREK data reduction