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Crystal structure of apo-FGD1 from Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 291 1.4 M Tri-sodium citrate, 0.1% Dioxane, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.06 40.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.954 α = 90 b = 89.133 β = 91.64 c = 90.859 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 110 CCD MARMOSAIC 325 mm CCD Mirrors 2007-02-15 M MAD 2 1 x-ray IMAGE PLATE MAR scanner 345 mm plate Osmic 2006-11-15 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97929, 0.91162, 0.97941 SSRL BL9-2 2 ROTATING ANODE RIGAKU MICROMAX-007 HF 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 1,2 1.9 40.1 99.6 0.062 13.5 3.5 101311 101311
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 1.9 1.95 98 0.552 1.7 3.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.9 40.1 101282 5077 99.65 0.214 0.212 0.255 0.2152 RANDOM 25.965
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] 0.07 0.05 0.12 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.103 r_dihedral_angle_4_deg 15.641 r_dihedral_angle_3_deg 15.082 r_dihedral_angle_1_deg 6.833 r_scangle_it 2.948 r_scbond_it 2.129 r_angle_refined_deg 1.541 r_mcangle_it 1.241 r_mcbond_it 0.894 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.103 r_dihedral_angle_4_deg 15.641 r_dihedral_angle_3_deg 15.082 r_dihedral_angle_1_deg 6.833 r_scangle_it 2.948 r_scbond_it 2.129 r_angle_refined_deg 1.541 r_mcangle_it 1.241 r_mcbond_it 0.894 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.226 r_nbd_refined 0.202 r_xyhbond_nbd_refined 0.159 r_symmetry_hbond_refined 0.125 r_chiral_restr 0.105 r_bond_refined_d 0.016 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10324 Nucleic Acid Atoms Solvent Atoms 371 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection MOSFLM data reduction SCALA data scaling SHARP phasing