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Crystal structure Analysis of N terminal region containing the dimerization domain and DNA binding domain of HU protein(Histone like protein-DNA binding) from Mycobacterium tuberculosis [H37Ra]
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P71 PDB ENTRY 1P71
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.2 293 3M Sodium formate, 0.1M Tris-Cl, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.93 36.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.774 α = 90 b = 53.974 β = 97.01 c = 41.732 γ = 90
Symmetry Space Group P 1 21 1
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 315 mirrors 2007-11-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.979 NSLS X29A
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 2.04 50 98.7 0.092 7.5 3.8 10304
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 2.04 2.12 92.9 0.391 3.4 967
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 (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 1P71 2.04 41.42 10468 10291 491 98.32 0.1906 0.1877 0.1956 0.2492 0.2579 RANDOM 34.753
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] -2 1.14 -1.82 3.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38 r_dihedral_angle_4_deg 16.813 r_dihedral_angle_3_deg 15.034 r_dihedral_angle_1_deg 5.884 r_mcangle_it 3.154 r_mcbond_it 2.079 r_mcbond_other 2.077 r_angle_refined_deg 1.477 r_angle_other_deg 0.771 r_chiral_restr 0.082
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38 r_dihedral_angle_4_deg 16.813 r_dihedral_angle_3_deg 15.034 r_dihedral_angle_1_deg 5.884 r_mcangle_it 3.154 r_mcbond_it 2.079 r_mcbond_other 2.077 r_angle_refined_deg 1.477 r_angle_other_deg 0.771 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1465 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms 12
Software Software Software Name Purpose SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction CBASS data collection DENZO data reduction