☰ Navigation Tabs
Crystal Structure of NORE1A in Complex with RAS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5P21 PDB ENTRY 5P21
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 100MM C2H3NAO2, 20% PEG 2000, 250MM (NH4)2SO4, 10MM DTE, pH 4.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.17 43.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.6 α = 90 b = 88 β = 125 c = 56.5 γ = 90
Symmetry Space Group C 1 2 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 4 2003-07-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.933 ESRF ID14-4
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 1.78 19.59 97.2 0.086 13.64 29894 30.52
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 1.78 1.85 86.3 0.348 4.1
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 5P21 1.8 19.59 29320 1466 100 0.195 0.193 0.1913 0.23 0.2289 RANDOM 25.8
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] 0.03 0.05 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.646 r_dihedral_angle_4_deg 20.846 r_dihedral_angle_3_deg 14.958 r_dihedral_angle_1_deg 5.847 r_scangle_it 4.001 r_scbond_it 2.61 r_mcangle_it 1.709 r_angle_refined_deg 1.456 r_mcbond_it 1.041 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.646 r_dihedral_angle_4_deg 20.846 r_dihedral_angle_3_deg 14.958 r_dihedral_angle_1_deg 5.847 r_scangle_it 4.001 r_scbond_it 2.61 r_mcangle_it 1.709 r_angle_refined_deg 1.456 r_mcbond_it 1.041 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.217 r_nbd_refined 0.208 r_symmetry_hbond_refined 0.196 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.101 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2394 Nucleic Acid Atoms Solvent Atoms 115 Heterogen Atoms 33
Software Software Software Name Purpose AMoRE phasing REFMAC refinement ADSC data collection XDS data reduction XSCALE data scaling