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Crystal structure of Putative histidinol-phosphate aminotransferase (YP_050345.1) from Erwinia carotovora atroseptica SCRI1043 at 1.80 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 277 20.0000% iso-Propanol, 20.0000% PEG-4000, 0.1M Citrate pH 5.6, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.8 56.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.625 α = 90 b = 150.477 β = 94.38 c = 100.092 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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2009-11-07 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.96109,0.97946,0.97936 SSRL BL9-2
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 1.8 29.564 96.5 0.059 8.36 158547 -3 23.011
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 1.79 1.85 79.8 0.675 1.4
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 1.8 29.564 158407 7952 99.32 0.178 0.176 0.1949 0.206 0.2205 RANDOM 17.717
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] 0.66 -1.05 -3.33 2.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.055 r_dihedral_angle_4_deg 17.813 r_dihedral_angle_3_deg 12.806 r_dihedral_angle_1_deg 6.053 r_scangle_it 3.463 r_scbond_it 2.228 r_angle_refined_deg 1.533 r_mcangle_it 1.268 r_angle_other_deg 0.946 r_mcbond_it 0.772
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.055 r_dihedral_angle_4_deg 17.813 r_dihedral_angle_3_deg 12.806 r_dihedral_angle_1_deg 6.053 r_scangle_it 3.463 r_scbond_it 2.228 r_angle_refined_deg 1.533 r_mcangle_it 1.268 r_angle_other_deg 0.946 r_mcbond_it 0.772 r_mcbond_other 0.254 r_chiral_restr 0.089 r_bond_refined_d 0.017 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10683 Nucleic Acid Atoms Solvent Atoms 1792 Heterogen Atoms 208
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing MolProbity model building