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Ubiquitin-like domain of human tubulin folding cofactor E - crystal from A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ICV PDB ENTRY 4ICV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 292 100 mM Tris pH 8.5, 200 mM sodium acetate and 26% PEG 4000, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.16 42.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.2 α = 90 b = 60.11 β = 90 c = 130.45 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 100 CCD MARMOSAIC 225 mm CCD 2011-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.8726 ESRF ID23-2
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 2.4 30 98.8 0.143 11.2 6.9 13724 23.53
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) 1 2.4 2.46 87.5 0.766 2.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 4ICV 2.4 30 13039 13039 684 98.88 0.20698 0.20698 0.20417 0.2105 0.26349 0.2703 RANDOM 39.579
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] -0.17 3 -2.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.436 r_dihedral_angle_3_deg 15.96 r_dihedral_angle_4_deg 15.149 r_dihedral_angle_1_deg 5.389 r_scangle_it 3.327 r_scbond_it 2.042 r_angle_refined_deg 1.11 r_mcangle_it 0.74 r_mcbond_it 0.357 r_chiral_restr 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.436 r_dihedral_angle_3_deg 15.96 r_dihedral_angle_4_deg 15.149 r_dihedral_angle_1_deg 5.389 r_scangle_it 3.327 r_scbond_it 2.042 r_angle_refined_deg 1.11 r_mcangle_it 0.74 r_mcbond_it 0.357 r_chiral_restr 0.07 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2728 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms
Software Software Software Name Purpose DNA data collection PHASER phasing REFMAC refinement XDS data reduction SCALA data scaling