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Human ZC3HAV1 (ARTD13), C-terminal domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PQF PDB ENTRY 2PQF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 20 % PEG 3350, 0.2M NA-FLUORIDE
Crystal Properties Matthews coefficient Solvent content 2.23 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.858 α = 90 b = 54.103 β = 90 c = 69.284 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 MARRESEARCH MIRRORS 2009-08-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 1.05 35 95.2 0.04 25.7 7 80468
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 1.05 1.08 70.2 0.48 3.9 5.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2PQF 1.05 31.84 76504 4027 100 0.1312 0.13026 0.1407 0.14927 0.1593 RANDOM 10.122
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] 0.22 0.08 -0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.749 r_dihedral_angle_4_deg 23.845 r_dihedral_angle_3_deg 11.723 r_dihedral_angle_1_deg 6.594 r_scangle_it 5.676 r_scbond_it 3.967 r_mcangle_it 3.102 r_mcbond_it 2.02 r_angle_refined_deg 1.934 r_rigid_bond_restr 1.619
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.749 r_dihedral_angle_4_deg 23.845 r_dihedral_angle_3_deg 11.723 r_dihedral_angle_1_deg 6.594 r_scangle_it 5.676 r_scbond_it 3.967 r_mcangle_it 3.102 r_mcbond_it 2.02 r_angle_refined_deg 1.934 r_rigid_bond_restr 1.619 r_angle_other_deg 1.016 r_mcbond_other 0.647 r_chiral_restr 0.121 r_bond_refined_d 0.021 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1421 Nucleic Acid Atoms Solvent Atoms 259 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing