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Crystal Structure of Candida glabrata FMN Adenylyltransferase in complex with FAD and Inorganic Pyrophosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FWK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 293 22% (w/v) PEG MME 2000, 0.2 M Magnesium sulfate, 0.1 M Sodium acetate, pH 4.8, Temperature 293K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.05 39.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 206.583 α = 90 b = 81.481 β = 129.79 c = 136.603 γ = 90
Symmetry Space Group C 1 2 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 315 2007-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97874 APS 19-ID
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 1.35 50 100 0.077 35.939 7.4 380943 380943 14.7
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) 1.35 1.4 99.8 0.551 2.37 4.8 37824
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 (All) 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 3FWK 1.35 32.19 380480 380480 19043 99.94 0.15491 0.155 0.153 0.1514 0.187 0.1867 RANDOM 18.537
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] 0.24 0.17 -0.07 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.927 r_dihedral_angle_4_deg 18.899 r_dihedral_angle_3_deg 13.298 r_dihedral_angle_1_deg 6.577 r_sphericity_free 5.062 r_sphericity_bonded 4.737 r_scangle_it 2.885 r_mcangle_it 2.811 r_scbond_it 2.141 r_mcbond_it 2.019
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.927 r_dihedral_angle_4_deg 18.899 r_dihedral_angle_3_deg 13.298 r_dihedral_angle_1_deg 6.577 r_sphericity_free 5.062 r_sphericity_bonded 4.737 r_scangle_it 2.885 r_mcangle_it 2.811 r_scbond_it 2.141 r_mcbond_it 2.019 r_angle_refined_deg 1.521 r_rigid_bond_restr 1.509 r_nbtor_refined 0.325 r_symmetry_vdw_refined 0.23 r_nbd_refined 0.214 r_symmetry_hbond_refined 0.195 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.097 r_metal_ion_refined 0.021 r_bond_refined_d 0.014 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14968 Nucleic Acid Atoms Solvent Atoms 1870 Heterogen Atoms 417
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing