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Crystal structure of HisAp form Arthrobacter aurescens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AXK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 289 0.8 M LiCl, 0.1 M Tris/HCl, pH 8.5, 32% PEG 4000, 2 mM RCDRP, cryo 5% glycerol
Crystal Properties Matthews coefficient Solvent content 2.19 43.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.974 α = 90 b = 93.974 β = 90 c = 45.433 γ = 120
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 mirrors 2013-10-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97927 APS 19-ID
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 1.5 30 99.9 0.069 19 4.4 36750 36750 -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 1.5 1.53 100 0.773 1.78 4.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1AXK 1.5 25.47 34822 1840 99.66 0.1373 0.13539 0.17319 0.1765 RANDOM 21.755
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] 0.11 0.11 0.11 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.5 r_sphericity_free 24.6 r_dihedral_angle_4_deg 15.255 r_sphericity_bonded 12.821 r_dihedral_angle_3_deg 11.918 r_dihedral_angle_1_deg 5.91 r_rigid_bond_restr 4.272 r_angle_refined_deg 1.574 r_angle_other_deg 0.832 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.5 r_sphericity_free 24.6 r_dihedral_angle_4_deg 15.255 r_sphericity_bonded 12.821 r_dihedral_angle_3_deg 11.918 r_dihedral_angle_1_deg 5.91 r_rigid_bond_restr 4.272 r_angle_refined_deg 1.574 r_angle_other_deg 0.832 r_chiral_restr 0.108 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1728 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 phasing HKL-3000 data scaling PHENIX phasing PHENIX model building