☰ Navigation Tabs
Murine angiogenin, phosphate complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AGI PDB ENTRY 1AGI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.2 25% PEG 4000, 0.1M SODIUM PHOSPHATE BUFFER, PH 5.2
Crystal Properties Matthews coefficient Solvent content 2.3 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.619 α = 90 b = 56.672 β = 90 c = 35.69 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 CCD ADSC CCD 2000-08-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX9.6 SRS PX9.6
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 1.6 40 94.1 0.07 16 5.8 16648
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 1.6 1.66 61.4 0.42 4
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 1AGI 1.62 42.33 15772 852 97.6 0.177 0.175 0.1743 0.207 0.2003 RANDOM 19.05
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] 0.23 0.23 -0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.169 r_dihedral_angle_4_deg 15.264 r_dihedral_angle_3_deg 11.324 r_dihedral_angle_1_deg 6.136 r_scangle_it 4.085 r_scbond_it 3.301 r_mcangle_it 2.939 r_mcbond_it 1.938 r_angle_refined_deg 1.64 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.169 r_dihedral_angle_4_deg 15.264 r_dihedral_angle_3_deg 11.324 r_dihedral_angle_1_deg 6.136 r_scangle_it 4.085 r_scbond_it 3.301 r_mcangle_it 2.939 r_mcbond_it 1.938 r_angle_refined_deg 1.64 r_nbtor_refined 0.303 r_nbd_refined 0.202 r_symmetry_hbond_refined 0.147 r_chiral_restr 0.133 r_symmetry_vdw_refined 0.132 r_xyhbond_nbd_refined 0.127 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 875 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing