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Crystal structure of Ari2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GR0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 278 Tris-HCl, sodium chloride, sodium citrate, NAD
Crystal Properties Matthews coefficient Solvent content 3.58 65.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.18 α = 90 b = 101.18 β = 90 c = 389.662 γ = 120
Symmetry Space Group P 65 2 2
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 270 2014-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1.0 Photon Factory AR-NE3A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.5 50 97.4 0.138 0.99 12.4 8.4 40934 38.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.64 96.3 0.407 0.867 4.6 8.7
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 1GR0 2.5 47.18 38772 2061 96.98 0.229 0.2263 0.2294 0.2804 0.2786 RANDOM 42.74
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] -0.72 -0.36 -0.72 2.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.623 r_dihedral_angle_3_deg 21.316 r_dihedral_angle_4_deg 20.843 r_dihedral_angle_1_deg 7.743 r_angle_refined_deg 1.928 r_angle_other_deg 1.421 r_chiral_restr 0.083 r_bond_refined_d 0.013 r_bond_other_d 0.009 r_gen_planes_refined 0.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.623 r_dihedral_angle_3_deg 21.316 r_dihedral_angle_4_deg 20.843 r_dihedral_angle_1_deg 7.743 r_angle_refined_deg 1.928 r_angle_other_deg 1.421 r_chiral_restr 0.083 r_bond_refined_d 0.013 r_bond_other_d 0.009 r_gen_planes_refined 0.009 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5048 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 108
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling MOLREP phasing