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Crystal Structure of the DUF55 domain of human thymocyte nuclear protein 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AR1 PDB entry 2ar1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 10.9 291 0.1M NaAc (pH 4.0-4.8), 28% PEG 2000 MME, 200mM (NH4)2SO4, 3% 1,6-diaminohexane as additive, pH 10.9, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.23 44.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.258 α = 90 b = 51.258 β = 90 c = 122.4 γ = 120
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 2008-03-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BSRF BEAMLINE 3W1A 1.000 BSRF 3W1A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.3 44.41 99.4 0.056 4.8 15997 15931 40.06
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.3 2.42 98.8 0.291 4.5 2326
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB entry 2ar1 2.3 44.39 15463 1422 96.7 0.1823 0.1417 0.2378 0.1774 36.2394
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] 0.031 -0.085 0.031 -0.062
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.63209 c_scangle_it 2.445 c_mcangle_it 2.296 c_scbond_it 1.756 c_mcbond_it 1.407 c_angle_d 1.17062 o_improper_angle_d 0.79878 c_bond_d 0.00602
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2719 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms 20
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing CNS refinement PDB_EXTRACT data extraction MAR345dtb data collection