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E coli NfsB with the unnatural amino acid, p-aminoPhe at position 124
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ICR Wild type NfsB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 291 100 mM Sodium acetate, pH 4.6, 15 mM nicotinic acid, 15% Ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.4 48.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.45 α = 90 b = 57.96 β = 103.73 c = 116.49 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 315r 2011-12-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.979 Diamond I04
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 2.48 53.81 99.6 0.094 11.5 3.44 32949 14.16
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.48 2.548 99.3 0.26
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 MOLECULAR REPLACEMENT THROUGHOUT 2.48 53.81 30944 1991 99.63 0.16442 0.16148 0.20989 0.215 RANDOM 23.997
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] 1.73 -0.6 -0.22 -1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.343 r_long_range_B_refined 7.905 r_long_range_B_other 7.904 r_scangle_other 6.797 r_dihedral_angle_1_deg 6.211 r_dihedral_angle_2_deg 5.916 r_mcangle_it 4.999 r_mcangle_other 4.998 r_scbond_it 4.625 r_scbond_other 4.625
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.343 r_long_range_B_refined 7.905 r_long_range_B_other 7.904 r_scangle_other 6.797 r_dihedral_angle_1_deg 6.211 r_dihedral_angle_2_deg 5.916 r_mcangle_it 4.999 r_mcangle_other 4.998 r_scbond_it 4.625 r_scbond_other 4.625 r_mcbond_it 3.464 r_mcbond_other 3.461 r_angle_refined_deg 1.886 r_angle_other_deg 0.631 r_chiral_restr 0.09 r_bond_refined_d 0.014 r_gen_planes_refined 0.014 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6712 Nucleic Acid Atoms Solvent Atoms 245 Heterogen Atoms 160
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction pointless data scaling PHASER phasing