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Crystal structure of Blasticidin S Deaminase from Coccidioides Immitis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WN5 pdb entry 1wn5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 290 EBS JCSG+ SCREEN A9: 200MM AMMOINUM CHLORIDE, 20% PEG 3350; COIMA.00173.A.A1 PS00476 AT 69MG/ML, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K, pH 7.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.48 α = 90 b = 56.28 β = 95.09 c = 90.29 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 RIGAKU SATURN 944+ RIGAKU VariMax HF 2010-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 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 1.7 50 99.3 0.043 31.96 8.8 51288 50904 -3 22.35
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) 1.7 1.74 90.6 0.289 3.3 2.3 3779
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 pdb entry 1wn5 1.7 46.3 51288 50841 2587 99.2 0.153 0.151 0.1575 0.189 0.1911 RANDOM 12.44
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] -0.6 0.24 0.63 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.247 r_dihedral_angle_4_deg 23.062 r_dihedral_angle_3_deg 11.489 r_dihedral_angle_1_deg 6.1 r_scangle_it 3.296 r_scbond_it 2.057 r_angle_refined_deg 1.428 r_mcangle_it 1.293 r_angle_other_deg 0.948 r_mcbond_it 0.794
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.247 r_dihedral_angle_4_deg 23.062 r_dihedral_angle_3_deg 11.489 r_dihedral_angle_1_deg 6.1 r_scangle_it 3.296 r_scbond_it 2.057 r_angle_refined_deg 1.428 r_mcangle_it 1.293 r_angle_other_deg 0.948 r_mcbond_it 0.794 r_mcbond_other 0.243 r_chiral_restr 0.087 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_gen_planes_other 0.004 r_bond_other_d 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 3798 Nucleic Acid Atoms Solvent Atoms 415 Heterogen Atoms 25
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling