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X-ray Structure of CUB_C domain from TSG-6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SZB HOMOLOGY MODEL OF TARGETS BASED UPON 1SZB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 100MM HEPES PH 7.5 200MM MGSO4 22% (W/V) PEG 1000
Crystal Properties Matthews coefficient Solvent content 3.09 59.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.929 α = 90 b = 56.929 β = 90 c = 112.572 γ = 90
Symmetry Space Group P 43 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 IMAGE PLATE RIGAKU R-AXIS IV MIRRORS 2005-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 2.3 40.3 98.7 0.08 8.5 5.4 8616
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 2.3 2.42 92.1 0.57 1.3 2.5
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 HOMOLOGY MODEL OF TARGETS BASED UPON 1SZB 2.3 40.26 8221 395 98.4 0.193 0.191 0.1886 0.228 0.2282 RANDOM 15.13
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] 0.67 0.67 -1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.3 r_dihedral_angle_4_deg 24.369 r_dihedral_angle_3_deg 14.594 r_dihedral_angle_1_deg 6.547 r_scangle_it 1.296 r_angle_refined_deg 1.113 r_scbond_it 0.772 r_mcangle_it 0.517 r_nbtor_refined 0.31 r_mcbond_it 0.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.3 r_dihedral_angle_4_deg 24.369 r_dihedral_angle_3_deg 14.594 r_dihedral_angle_1_deg 6.547 r_scangle_it 1.296 r_angle_refined_deg 1.113 r_scbond_it 0.772 r_mcangle_it 0.517 r_nbtor_refined 0.31 r_mcbond_it 0.292 r_nbd_refined 0.195 r_xyhbond_nbd_refined 0.136 r_symmetry_vdw_refined 0.136 r_metal_ion_refined 0.134 r_symmetry_hbond_refined 0.096 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 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_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 943 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing