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Crystal structure of xeg-edgp
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3VL8 3VL8, 3VLA experimental model PDB 3VLA 3VL8, 3VLA
Crystallization Crystal Properties Matthews coefficient Solvent content 2.91 57.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 249.043 α = 90 b = 51.691 β = 122.21 c = 143.235 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 CCD RAYONIX MX225HE 2011-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32XU 1 SPring-8 BL32XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 50 40308
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 3VL8, 3VLA 2.7 10 37706 1994 91.96 0.26167 0.25743 0.2526 0.34075 0.3294 RANDOM 52.327
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] -3.28 -2.36 4.89 -4.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.39 r_dihedral_angle_3_deg 15.467 r_dihedral_angle_4_deg 13.199 r_dihedral_angle_1_deg 7.303 r_angle_other_deg 4.028 r_angle_refined_deg 1.537 r_chiral_restr 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_gen_planes_other 0.006
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.39 r_dihedral_angle_3_deg 15.467 r_dihedral_angle_4_deg 13.199 r_dihedral_angle_1_deg 7.303 r_angle_other_deg 4.028 r_angle_refined_deg 1.537 r_chiral_restr 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_gen_planes_other 0.006 r_bond_other_d 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_mcbond_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9232 Nucleic Acid Atoms Solvent Atoms 53 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement