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Crystal structure of human cystatin E/M produced in LEXSY
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4N6L PDB ENTRY 4N6L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 22 % PEG 8000, 100 mM MES sodium salt pH 6.5, 200 mM ammonium sulfate, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.2 44.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.71 α = 90 b = 82.63 β = 112.81 c = 43.49 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 ADSC QUANTUM 315r 2013-07-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9393 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 41.3 95.5 10699 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.33 2.45 96.4
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 (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 4N6L 2.9 40.12 2 5266 262 95.34 0.26175 0.2607 0.26067 0.2598 0.28346 0.2759 RANDOM 33.574
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] 6.07 1.72 -4.32 -1.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.858 r_dihedral_angle_4_deg 14.985 r_dihedral_angle_3_deg 11.969 r_dihedral_angle_1_deg 5.137 r_long_range_B_other 2.762 r_long_range_B_refined 2.761 r_mcangle_it 1.256 r_mcangle_other 1.255 r_angle_refined_deg 0.814 r_mcbond_it 0.653
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.858 r_dihedral_angle_4_deg 14.985 r_dihedral_angle_3_deg 11.969 r_dihedral_angle_1_deg 5.137 r_long_range_B_other 2.762 r_long_range_B_refined 2.761 r_mcangle_it 1.256 r_mcangle_other 1.255 r_angle_refined_deg 0.814 r_mcbond_it 0.653 r_mcbond_other 0.653 r_angle_other_deg 0.603 r_scangle_other 0.525 r_scbond_it 0.192 r_scbond_other 0.191 r_chiral_restr 0.049 r_bond_refined_d 0.004 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1813 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms 5
Software Software Software Name Purpose MxCuBE data collection PHASER phasing REFMAC refinement iMOSFLM data reduction SCALA data scaling