☰ Navigation Tabs
Crystal structure of methylated RPA0582 protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DCA PDB entry 3DCA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.2M AMMONIUM SULPHATE, 25% PEG3350, 0.1M HEPES pH7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 193.012 α = 90 b = 193.012 β = 90 c = 117.965 γ = 120
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 SBC-3 MIRROR 2007-10-31 M MOLECULAR REPLACEMENT
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9787 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.65 96.67 99.9 0.09 0.09 24.26 4.4 47581 47581 -3 73.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.7 99.3 0.596 0.596 2.3 4.4 2405
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 3DCA 2.65 32.17 47443 47443 2400 99.58 0.18 0.18 0.178 0.1861 0.206 0.2134 RANDOM 34.56
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] -0.25 -0.12 -0.25 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.743 r_dihedral_angle_4_deg 21.544 r_dihedral_angle_3_deg 16.047 r_dihedral_angle_1_deg 6.628 r_scangle_it 4.104 r_scbond_it 2.446 r_mcangle_it 1.71 r_angle_refined_deg 1.584 r_mcbond_it 0.9 r_angle_other_deg 0.837
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.743 r_dihedral_angle_4_deg 21.544 r_dihedral_angle_3_deg 16.047 r_dihedral_angle_1_deg 6.628 r_scangle_it 4.104 r_scbond_it 2.446 r_mcangle_it 1.71 r_angle_refined_deg 1.584 r_mcbond_it 0.9 r_angle_other_deg 0.837 r_mcbond_other 0.135 r_chiral_restr 0.082 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4299 Nucleic Acid Atoms Solvent Atoms 251 Heterogen Atoms 270
Software Software Software Name Purpose HKL-3000 data collection MOLREP phasing REFMAC refinement Coot model building HKL-2000 data reduction HKL-2000 data scaling