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Crystal structure of Drosophila deoxyribonucleotide kinase complexed with the substrate deoxythymidine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J90 PDB ENTRY 1J90
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 287 ammonium sulfate, MPEG5000, PEG400, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 287K
Crystal Properties Matthews coefficient Solvent content 3.03 59.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.379 α = 90 b = 71.158 β = 90.59 c = 226.272 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 MARRESEARCH 2002-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.93927 ESRF ID14-1
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 25 90.4 0.065 0.05 8 2.1 77914 70001 54.664
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 2.65 68.1 0.306 0.236 1.8 1.8 7680
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 PDB ENTRY 1J90 2.5 25 1.8 1.8 77914 70001 3560 89.8 0.227 0.2252 0.2764 0.2739 RANDOM
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] -3.087 14.047 -9.358 12.445
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.973 c_mcangle_it 2.575 c_scbond_it 1.941 c_mcbond_it 1.492
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12847 Nucleic Acid Atoms Solvent Atoms 310 Heterogen Atoms 181
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing CNS refinement CCP4 data scaling