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N-terminal domain of human conserved dopamine neurotrophic factor (CDNF)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 CRYSTALS OF CDNF AT 10-20 MG/ML WERE GROWN IN SITTING DROPS OVER A RESERVOIR SOLUTION OF 100 MM NA-ACETATE, PH 4.6, 0.2 M NH4-ACETATE AND 25-30 % MME-PEG 2000.
Crystal Properties Matthews coefficient Solvent content 2.4 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.3 α = 90 b = 42.04 β = 97.67 c = 51.99 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 93 CCD ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
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 1.6 20 99.7 0.06 13.6 4 110661 -3
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 1.6 1.7 99.9 0.49 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 MAD THROUGHOUT 1.6 20 26056 1381 99.8 0.21 0.209 0.2086 0.24 0.2395 RANDOM 22.27
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] 0.06 -0.73 0.3 -0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.933 r_dihedral_angle_4_deg 17.471 r_dihedral_angle_3_deg 12.429 r_scangle_it 4.975 r_dihedral_angle_1_deg 4.795 r_mcangle_it 3.538 r_scbond_it 3.086 r_mcbond_it 2.233 r_angle_refined_deg 1.283 r_chiral_restr 0.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.933 r_dihedral_angle_4_deg 17.471 r_dihedral_angle_3_deg 12.429 r_scangle_it 4.975 r_dihedral_angle_1_deg 4.795 r_mcangle_it 3.538 r_scbond_it 3.086 r_mcbond_it 2.233 r_angle_refined_deg 1.283 r_chiral_restr 0.086 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1557 Nucleic Acid Atoms Solvent Atoms 145 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement XDS data scaling HKL2Map phasing