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Crystal structure of MLAC mutant of dimerisation domain of NF-kB p50 transcription factor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BFS PDB ENTRY 1BFS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 292 PEG 8000, ammonium sulphate, cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.34 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.097 α = 90 b = 63.097 β = 90 c = 64.044 γ = 90
Symmetry Space Group P 41 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 100 CCD ADSC QUANTUM 4 2001-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.2 1.00 SRS PX14.2
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 1.9 45.18 99.8 0.038 16.3 7.7 10700 10700 2.5 30.795
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 1.9 1.94 100 0.339
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1BFS 1.9 45.18 10151 10151 511 99.77 0.185 0.185 0.182 0.1959 0.235 0.2471 RANDOM 32.336
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] 0.32 0.32 -0.65
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.816 r_dihedral_angle_1_deg 6.672 r_mcangle_it 4.603 r_scbond_it 4.387 r_mcbond_it 3.145 r_angle_refined_deg 1.582 r_angle_other_deg 0.858 r_symmetry_hbond_refined 0.338 r_symmetry_vdw_other 0.279 r_symmetry_vdw_refined 0.277
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.816 r_dihedral_angle_1_deg 6.672 r_mcangle_it 4.603 r_scbond_it 4.387 r_mcbond_it 3.145 r_angle_refined_deg 1.582 r_angle_other_deg 0.858 r_symmetry_hbond_refined 0.338 r_symmetry_vdw_other 0.279 r_symmetry_vdw_refined 0.277 r_xyhbond_nbd_refined 0.276 r_nbd_other 0.257 r_nbd_refined 0.198 r_chiral_restr 0.101 r_nbtor_other 0.088 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_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 840 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement