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Crystal structure of the GA module from F.magna
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TF0 PDB ENTRY 1TF0, CHAIN B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 22-26% (W/V) PEG 3350, 50 MM POTASSIUM PHOSPHATE PH 7.5, 100 MM AMMONIUM ACETATE
Crystal Properties Matthews coefficient Solvent content 1.88 34.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.784 α = 90 b = 58.068 β = 90.03 c = 40.57 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 MARRESEARCH PT-COATED MIRRORS IN KB GEOMETRY 2005-12-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 1.4 40 94.4 0.07 11.7 2.5 22273 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 1.4 1.48 72.6 0.24 2.8 2.2
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 PDB ENTRY 1TF0, CHAIN B 1.4 40.56 21101 1152 94.3 0.151 0.148 0.1463 0.199 0.1986 RANDOM 14.77
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] 0.34 -0.03 -0.32 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.002 r_dihedral_angle_3_deg 13.58 r_dihedral_angle_4_deg 7.325 r_scangle_it 6.545 r_scbond_it 5.017 r_dihedral_angle_1_deg 4.963 r_mcangle_it 3.749 r_mcbond_it 2.868 r_angle_refined_deg 1.61 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.002 r_dihedral_angle_3_deg 13.58 r_dihedral_angle_4_deg 7.325 r_scangle_it 6.545 r_scbond_it 5.017 r_dihedral_angle_1_deg 4.963 r_mcangle_it 3.749 r_mcbond_it 2.868 r_angle_refined_deg 1.61 r_nbtor_refined 0.315 r_nbd_refined 0.232 r_symmetry_vdw_refined 0.223 r_xyhbond_nbd_refined 0.188 r_symmetry_hbond_refined 0.173 r_chiral_restr 0.124 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 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 960 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing