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Crystal structure of kynurenine formamidase from Bacillus anthracis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other KYNURENINE FORMAMIDASE FROM BURKHOLDERIA CENOCEPACIA. TO BE SUBMITED
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 293 100 MM TRIS-HCL PH 8.5, 150 MM MGCL2, 30 % (W/V) PEG 4000 AND 1.5 % (V/V) DIOXANE. 293 K.
Crystal Properties Matthews coefficient Solvent content 2.22 44.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.71 α = 90 b = 66.02 β = 90.32 c = 83.76 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 CCD MIRRORS 2013-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 1.95 42.48 99.4 0.06 11.1 3.5 202165
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 1.95 2 94.9 0.12 4.3 2.6
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 KYNURENINE FORMAMIDASE FROM BURKHOLDERIA CENOCEPACIA. TO BE SUBMITED 1.95 83.76 55358 2954 99.37 0.17323 0.17145 0.1812 0.20663 0.2172 RANDOM 15.886
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] 0.02 0.17 0.37 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.396 r_dihedral_angle_3_deg 12.896 r_dihedral_angle_4_deg 12.277 r_dihedral_angle_1_deg 6.314 r_scangle_it 1.634 r_mcangle_it 1.558 r_angle_refined_deg 1.321 r_angle_other_deg 1.251 r_scbond_it 0.973 r_mcbond_it 0.902
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.396 r_dihedral_angle_3_deg 12.896 r_dihedral_angle_4_deg 12.277 r_dihedral_angle_1_deg 6.314 r_scangle_it 1.634 r_mcangle_it 1.558 r_angle_refined_deg 1.321 r_angle_other_deg 1.251 r_scbond_it 0.973 r_mcbond_it 0.902 r_mcbond_other 0.902 r_metal_ion_refined 0.62 r_symmetry_vdw_refined 0.278 r_symmetry_hbond_other 0.267 r_nbd_refined 0.254 r_symmetry_hbond_refined 0.204 r_symmetry_vdw_other 0.197 r_nbd_other 0.192 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.144 r_xyhbond_nbd_other 0.135 r_nbtor_other 0.085 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_bond_other_d 0.006 r_gen_planes_refined 0.006 r_gen_planes_other 0.005 r_metal_ion_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6473 Nucleic Acid Atoms Solvent Atoms 906 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling MOLREP phasing