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Crystal structure of DNA binding protein (YP_298823.1) from Ralstonia eutropha JMP134 at 1.92 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.17 277 24.0000% polyethylene glycol 6000, 1.0000M lithium chloride, 0.1M TRIS pH 8.17, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.23 44.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.646 α = 90 b = 79.135 β = 102.08 c = 103.244 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2009-04-16 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97862,0.97799 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.92 29.361 99.6 0.052 0.052 12.1 2.7 32709 34.581
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.92 1.97 100 0.556 0.556 1.4 2.7 2416
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.92 29.361 32709 1662 99.45 0.201 0.199 0.237 0.2971 RANDOM 24.792
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] 1.53 -0.65 -1.3 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.627 r_dihedral_angle_4_deg 17.537 r_dihedral_angle_3_deg 14.736 r_dihedral_angle_1_deg 4.953 r_scangle_it 4.134 r_scbond_it 2.582 r_mcangle_it 1.547 r_angle_refined_deg 1.489 r_angle_other_deg 0.967 r_mcbond_it 0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.627 r_dihedral_angle_4_deg 17.537 r_dihedral_angle_3_deg 14.736 r_dihedral_angle_1_deg 4.953 r_scangle_it 4.134 r_scbond_it 2.582 r_mcangle_it 1.547 r_angle_refined_deg 1.489 r_angle_other_deg 0.967 r_mcbond_it 0.87 r_mcbond_other 0.232 r_chiral_restr 0.089 r_bond_refined_d 0.018 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 3117 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing