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Crystal structure of WLAC 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 2.44 49.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.087 α = 90 b = 63.087 β = 90 c = 65.279 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 1.89 45.18 99.8 0.053 15.4 7 11068 10502 2.5 28.957
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 1.89 1.94 100 0.332
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 1.89 45.18 10502 10502 526 99.6 0.187 0.187 0.185 0.197 0.22 0.2234 RANDOM 29.4
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] -0.02 -0.02 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.836 r_scangle_it 6.129 r_mcangle_it 4.452 r_scbond_it 4.084 r_mcbond_it 3.019 r_angle_refined_deg 1.588 r_angle_other_deg 0.866 r_xyhbond_nbd_refined 0.308 r_symmetry_vdw_other 0.264 r_nbd_other 0.262
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.836 r_scangle_it 6.129 r_mcangle_it 4.452 r_scbond_it 4.084 r_mcbond_it 3.019 r_angle_refined_deg 1.588 r_angle_other_deg 0.866 r_xyhbond_nbd_refined 0.308 r_symmetry_vdw_other 0.264 r_nbd_other 0.262 r_symmetry_vdw_refined 0.206 r_nbd_refined 0.174 r_symmetry_hbond_refined 0.158 r_chiral_restr 0.102 r_nbtor_other 0.087 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 829 Nucleic Acid Atoms Solvent Atoms 123 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement