☰ Navigation Tabs
Crystal structure of MBP-Tom20 fusion protein with a 2-residue spacer in the connector helix
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ANF 1ANF, 2V1T experimental model PDB 2V1T 1ANF, 2V1T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.3 293 16% PEG 3350, 0.2M Disodium malonate, 0.1M HEPES (pH7.3)
Crystal Properties Matthews coefficient Solvent content 2.91 57.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 129.906 α = 90 b = 81.227 β = 106.38 c = 109.89 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 RAYONIX MX-225 2011-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32XU 1.0 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 2.56 50 99.9 11 3.79 35889
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 1ANF, 2V1T 2.56 24.72 34036 1784 99.24 0.20625 0.20337 0.2075 0.25972 0.2624 RANDOM 60.183
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] -0.06 -0.19 -0.23 0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.03 r_dihedral_angle_4_deg 21.131 r_dihedral_angle_3_deg 20.447 r_long_range_B_refined 9.74 r_long_range_B_other 9.739 r_dihedral_angle_1_deg 7.705 r_scangle_other 6.261 r_mcangle_other 5.973 r_mcangle_it 5.972 r_scbond_it 4.139
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.03 r_dihedral_angle_4_deg 21.131 r_dihedral_angle_3_deg 20.447 r_long_range_B_refined 9.74 r_long_range_B_other 9.739 r_dihedral_angle_1_deg 7.705 r_scangle_other 6.261 r_mcangle_other 5.973 r_mcangle_it 5.972 r_scbond_it 4.139 r_scbond_other 4.138 r_mcbond_it 3.966 r_mcbond_other 3.963 r_angle_refined_deg 1.718 r_angle_other_deg 1.124 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6754 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing