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Crystal structure of an ethd-like protein (reut_b5694) from ralstonia eutropha jmp134 at 2.10 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 NANODROP, 15.0% Glycerol, 8.5% Isopropanol, 17.0% PEG 4000, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.36 47.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.54 α = 90 b = 74.54 β = 90 c = 98.87 γ = 90
Symmetry Space Group P 43 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 315 KOHZU: Double crystal Si(111) 2007-11-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9795, 0.9184, 0.9796 ALS 8.2.1
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 2.1 29.761 98.8 0.102 9.75 16887 -3 29.47
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 2.1 2.17 95.8 0.653 2.1
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 2.1 29.761 16836 849 99.82 0.179 0.178 0.1849 0.212 0.2185 RANDOM 44.605
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] -0.19 -0.19 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.78 r_dihedral_angle_4_deg 12.783 r_dihedral_angle_3_deg 10.36 r_scangle_it 4.948 r_dihedral_angle_1_deg 4.012 r_scbond_it 3.76 r_mcangle_it 2.134 r_mcbond_it 1.592 r_angle_refined_deg 1.539 r_angle_other_deg 1.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.78 r_dihedral_angle_4_deg 12.783 r_dihedral_angle_3_deg 10.36 r_scangle_it 4.948 r_dihedral_angle_1_deg 4.012 r_scbond_it 3.76 r_mcangle_it 2.134 r_mcbond_it 1.592 r_angle_refined_deg 1.539 r_angle_other_deg 1.317 r_mcbond_other 0.419 r_nbd_refined 0.169 r_nbtor_refined 0.164 r_nbd_other 0.135 r_symmetry_vdw_other 0.108 r_symmetry_vdw_refined 0.104 r_chiral_restr 0.097 r_symmetry_hbond_refined 0.089 r_xyhbond_nbd_refined 0.081 r_nbtor_other 0.071 r_bond_refined_d 0.013 r_bond_other_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1735 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction ADSC data collection XDS data reduction SHELXD phasing autoSHARP phasing