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Physcomitrella patens FBPase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1D9Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 25 % PEG 3350
0.1 M Bis-Tris
Crystal Properties Matthews coefficient Solvent content 2.29 46.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.075 α = 90 b = 84.803 β = 104.59 c = 105.748 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 IMAGE PLATE MAR scanner 345 mm plate 2015-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 3 104 88.5 0.12 0.993 8.8 3.6 21633 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 1D9Q 3 102.34 17748 931 72.95 0.25711 0.25409 0.2557 0.31508 0.3197 RANDOM 55.924
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] 1.59 1.15 -0.39 -1.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.16 r_dihedral_angle_3_deg 21.502 r_dihedral_angle_4_deg 16.48 r_long_range_B_other 10.305 r_long_range_B_refined 10.304 r_dihedral_angle_1_deg 7.207 r_mcangle_it 6.639 r_mcangle_other 6.639 r_scangle_other 6.191 r_mcbond_it 3.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.16 r_dihedral_angle_3_deg 21.502 r_dihedral_angle_4_deg 16.48 r_long_range_B_other 10.305 r_long_range_B_refined 10.304 r_dihedral_angle_1_deg 7.207 r_mcangle_it 6.639 r_mcangle_other 6.639 r_scangle_other 6.191 r_mcbond_it 3.92 r_mcbond_other 3.919 r_scbond_it 3.597 r_scbond_other 3.597 r_angle_refined_deg 1.399 r_angle_other_deg 1.043 r_chiral_restr 0.072 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.004 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9856 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing