☰ Navigation Tabs
Ribonuclease A in complex with 5'-ADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AFU PDB ENTRY 1AFU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 289 20mM SODIUM CITRATE BUFFER, 20% PEG 4000, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 1.67 25.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.722 α = 90 b = 32.515 β = 90.03 c = 72.164 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 mirrors 2001-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.2 30 96.5 0.053 20.9 8.9 70118 70118 -3 12.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.2 1.22 96.9 0.13
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1AFU 1.2 29.24 0.1 66544 66544 3573 97.9 0.19124 0.18963 0.18963 0.197 0.22108 0.2284 RANDOM 15.133
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] -0.09 0.08 0.45 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 14.195 r_dihedral_angle_1_deg 5.084 r_scangle_it 3.33 r_sphericity_bonded 2.375 r_scbond_it 2.171 r_sphericity_free 2.012 r_mcangle_it 1.911 r_angle_refined_deg 1.783 r_rigid_bond_restr 1.242 r_mcbond_it 1.173
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 14.195 r_dihedral_angle_1_deg 5.084 r_scangle_it 3.33 r_sphericity_bonded 2.375 r_scbond_it 2.171 r_sphericity_free 2.012 r_mcangle_it 1.911 r_angle_refined_deg 1.783 r_rigid_bond_restr 1.242 r_mcbond_it 1.173 r_angle_other_deg 0.809 r_symmetry_vdw_other 0.606 r_symmetry_hbond_refined 0.604 r_symmetry_vdw_refined 0.555 r_xyhbond_nbd_refined 0.296 r_nbd_refined 0.27 r_nbd_other 0.236 r_xyhbond_nbd_other 0.177 r_nbtor_other 0.149 r_chiral_restr 0.1 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_gen_planes_other 0.004 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1902 Nucleic Acid Atoms Solvent Atoms 541 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling CNS phasing