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ClpB NBD2 K601Q from T. thermophilus in complex with MANT-dADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4LJ5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.1M HEPES/NaOH, 12% PEG 6000, 50mM magnesium chloride, 2mM MANT-dADP, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.36 47.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.69 α = 90 b = 103.88 β = 90 c = 159.11 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL PSI PILATUS 6M 2010-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9787 SLS X10SA
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 2.8 50 93.1 0.084 11.2 3.5 27597 27597 81.6
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 2.8 2.9 78.3 0.557 2.2 3.5 4066
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 4LJ5 2.8 49.38 26218 26218 1380 100 0.24315 0.24315 0.24048 0.2403 0.29484 0.2844 RANDOM 68.744
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] -3.79 0.68 3.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.391 r_dihedral_angle_3_deg 16.377 r_dihedral_angle_4_deg 13.188 r_dihedral_angle_1_deg 4.312 r_angle_refined_deg 0.974 r_scangle_it 0.657 r_scbond_it 0.352 r_mcangle_it 0.169 r_mcbond_it 0.078 r_chiral_restr 0.059
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.391 r_dihedral_angle_3_deg 16.377 r_dihedral_angle_4_deg 13.188 r_dihedral_angle_1_deg 4.312 r_angle_refined_deg 0.974 r_scangle_it 0.657 r_scbond_it 0.352 r_mcangle_it 0.169 r_mcbond_it 0.078 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7167 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 123
Software Software Software Name Purpose PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling