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Crystal structure of FkpA from Escherichia coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FD9 pdb entry 1fd9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 296 MES, jeffamine M600, CsCl, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 3.04 59.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.18 α = 90 b = 132.75 β = 90 c = 41.78 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 110 CCD MARRESEARCH 2001-04-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.45 30 0.089 0.081 7.5 6.2 12110 12110 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.45 2.58 99.2 0.441 0.394 1.8 4.8
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 (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 1fd9 2.45 30 11498 11498 602 99.12 0.21391 0.21071 0.2103 0.27663 0.2608 RANDOM 27.207
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] 4.75 -2.63 -2.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 22.845 r_dihedral_angle_1_deg 4.121 r_scangle_it 3.679 r_mcangle_it 2.222 r_scbond_it 2.13 r_angle_refined_deg 1.698 r_mcbond_it 1.253 r_angle_other_deg 0.788 r_symmetry_hbond_refined 0.742 r_symmetry_vdw_refined 0.291
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 22.845 r_dihedral_angle_1_deg 4.121 r_scangle_it 3.679 r_mcangle_it 2.222 r_scbond_it 2.13 r_angle_refined_deg 1.698 r_mcbond_it 1.253 r_angle_other_deg 0.788 r_symmetry_hbond_refined 0.742 r_symmetry_vdw_refined 0.291 r_nbd_refined 0.269 r_xyhbond_nbd_refined 0.265 r_nbd_other 0.225 r_symmetry_vdw_other 0.197 r_symmetry_hbond_other 0.151 r_chiral_restr 0.094 r_metal_ion_refined 0.067 r_bond_refined_d 0.018 r_xyhbond_nbd_other 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_nbtor_other r_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1609 Nucleic Acid Atoms Solvent Atoms 116 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DENZO data reduction CCP4 data scaling AMoRE phasing