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Ethanolamine utilization protein, EutN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HD3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.3 298 0.1M Bis-Tris, 0.2M ammonium acetate, 50% MPD, pH5.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.25 45.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.281 α = 90 b = 66.54 β = 119.25 c = 72.004 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 IMAGE PLATE RIGAKU RAXIS IV 2007-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-D 1.5418
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 2.7 80 97 0.103 7.5 2.4 15586 -3
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 2.7 2.8 93.5 0.494 2.3 1477
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 2HD3 2.71 19.98 13732 704 85.45 0.246 0.243 0.2448 0.302 0.3018 RANDOM 19.709
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] -0.04 -0.03 0.02 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.86 r_dihedral_angle_4_deg 20.406 r_dihedral_angle_3_deg 17.528 r_dihedral_angle_1_deg 5.347 r_mcangle_it 1.847 r_mcbond_it 1.615 r_scangle_it 1.098 r_angle_refined_deg 0.95 r_scbond_it 0.783 r_angle_other_deg 0.781
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.86 r_dihedral_angle_4_deg 20.406 r_dihedral_angle_3_deg 17.528 r_dihedral_angle_1_deg 5.347 r_mcangle_it 1.847 r_mcbond_it 1.615 r_scangle_it 1.098 r_angle_refined_deg 0.95 r_scbond_it 0.783 r_angle_other_deg 0.781 r_mcbond_other 0.223 r_nbd_refined 0.187 r_nbd_other 0.182 r_nbtor_refined 0.157 r_symmetry_vdw_refined 0.143 r_symmetry_hbond_refined 0.136 r_xyhbond_nbd_refined 0.132 r_symmetry_vdw_other 0.128 r_nbtor_other 0.082 r_chiral_restr 0.057 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4029 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 33
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection