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X-ray crystal structure of 5'-fluorodeoxyadenosine synthase from Streptomyces cattleya complexed with 5'deoxyadenosine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C2W PDB ENTRY 2C2W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4 24% PEG 1K, 100MM PHOSPHATE CITRATE PH4.4, 200MM LI2SO4, 20MM NACL, pH 4.00
Crystal Properties Matthews coefficient Solvent content 2.58 52.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.99 α = 90 b = 129.676 β = 90 c = 184.505 γ = 90
Symmetry Space Group C 2 2 21
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 CCD TOROIDAL MIRROR 2005-05-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 2 44.9 74.1 0.08 9.9 2 45862 2
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 2 2.1 66.9 0.27 2.1 1.7
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2C2W 2 35 43477 2275 74 0.191 0.187 0.249 RANDOM 26.08
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] 2.57 -2.29 -0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.515 r_dihedral_angle_4_deg 17.962 r_dihedral_angle_3_deg 14.07 r_dihedral_angle_1_deg 6.743 r_mcangle_it 1.266 r_scangle_it 1.175 r_angle_refined_deg 1.12 r_scbond_it 0.848 r_mcbond_it 0.837 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.515 r_dihedral_angle_4_deg 17.962 r_dihedral_angle_3_deg 14.07 r_dihedral_angle_1_deg 6.743 r_mcangle_it 1.266 r_scangle_it 1.175 r_angle_refined_deg 1.12 r_scbond_it 0.848 r_mcbond_it 0.837 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.212 r_symmetry_hbond_refined 0.211 r_nbd_refined 0.192 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.078 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 6621 Nucleic Acid Atoms Solvent Atoms 336 Heterogen Atoms 55
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing