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Crystal structure of a DHHW family protein (EUBSIR_00411) from Eubacterium siraeum DSM 15702 at 1.49 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.20M Sodium Iodide, 20.0% polyethylene glycol 3350, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.36 47.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.125 α = 90 b = 102.125 β = 90 c = 123.311 γ = 120
Symmetry Space Group P 61 2 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 315 KOHZU: Double Crystal Si(111) 2013-10-17 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.918401,0.979346,0.979261 ALS 8.2.1
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 1.49 29.481 100 0.11 12.5 10.3 62386 62386
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 1.49 1.53 100 0.015 1.482 0.5 10.3 4543
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.49 29.481 62267 3144 99.85 0.1264 0.1247 0.1247 0.1577 0.1557 RANDOM 19.684
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] 0.28 0.28 0.28 -0.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.809 r_sphericity_free 27.121 r_dihedral_angle_4_deg 12.663 r_dihedral_angle_3_deg 11.4 r_sphericity_bonded 9.651 r_dihedral_angle_1_deg 5.4 r_rigid_bond_restr 3.424 r_mcangle_it 2.6 r_mcbond_it 2.208 r_mcbond_other 2.202
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.809 r_sphericity_free 27.121 r_dihedral_angle_4_deg 12.663 r_dihedral_angle_3_deg 11.4 r_sphericity_bonded 9.651 r_dihedral_angle_1_deg 5.4 r_rigid_bond_restr 3.424 r_mcangle_it 2.6 r_mcbond_it 2.208 r_mcbond_other 2.202 r_angle_refined_deg 1.653 r_angle_other_deg 0.816 r_chiral_restr 0.101 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2389 Nucleic Acid Atoms Solvent Atoms 367 Heterogen Atoms 14
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing SCALA data scaling REFMAC refinement MOSFLM data reduction SHELXD phasing