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Crystal structure of the BTB domain from Kaiso/ZBTB33, form I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BUO Single chain poly-alanine model of PDB code 1BUO, except where residues were identical between Kaiso and 1BUO, and all loops and turns were deleted
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.3 295 0.25 M sodium sulfate, 0.1 M sodium acetate pH 4.3, 13% (w/v) PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.75 55.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.208 α = 90 b = 117.208 β = 90 c = 38.405 γ = 120
Symmetry Space Group P 62 2 2
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 4r mirrors 2004-02-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 1.10 NSLS X8C
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 2.05 29.3 98.6 0.065 51.82 20.95 10103 -3
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 2.05 2.12 97.7 0.347 8.43 980
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 Single chain poly-alanine model of PDB code 1BUO, except where residues were identical between Kaiso and 1BUO, and all loops and turns were deleted 2.05 29.3 9612 488 98.62 0.19314 0.19074 0.1929 0.24181 0.247 RANDOM 28.704
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] -0.5 -0.25 -0.5 0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.622 r_dihedral_angle_4_deg 15.118 r_dihedral_angle_3_deg 14.117 r_dihedral_angle_1_deg 6.158 r_scangle_it 5.155 r_scbond_it 3.145 r_mcangle_it 1.993 r_angle_refined_deg 1.532 r_mcbond_it 1.16 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.622 r_dihedral_angle_4_deg 15.118 r_dihedral_angle_3_deg 14.117 r_dihedral_angle_1_deg 6.158 r_scangle_it 5.155 r_scbond_it 3.145 r_mcangle_it 1.993 r_angle_refined_deg 1.532 r_mcbond_it 1.16 r_nbtor_refined 0.313 r_nbd_refined 0.226 r_symmetry_vdw_refined 0.196 r_symmetry_hbond_refined 0.173 r_xyhbond_nbd_refined 0.158 r_chiral_restr 0.108 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 911 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms 2
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling