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Crystal structure of apo shwanavidin (P1 form)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 293 3.0 mg/ml protein in 0.1 M in acetic acid, pH 3.0 mixed with 170 mM Bis-Tris pH 6.0-6.8, 2.0 M Sodium Formate, microbatch, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.08 40.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.332 α = 103.83 b = 63.503 β = 107.28 c = 67.745 γ = 103.84
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 QUANTUM 315r optical hutch 2009-06-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.979 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.07 61 92.5 286503 257028 1 1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.07 60.97 257028 243993 12987 92.49 0.15982 0.15847 0.1578 0.18536 0.1849 RANDOM 15.928
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] 1.25 0.03 0.49 -0.45 0.69 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.757 r_dihedral_angle_3_deg 11.483 r_dihedral_angle_4_deg 6.737 r_dihedral_angle_1_deg 6.736 r_sphericity_bonded 6.084 r_sphericity_free 5.81 r_scangle_it 3.122 r_scbond_it 2.48 r_mcangle_it 2.026 r_rigid_bond_restr 1.454
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.757 r_dihedral_angle_3_deg 11.483 r_dihedral_angle_4_deg 6.737 r_dihedral_angle_1_deg 6.736 r_sphericity_bonded 6.084 r_sphericity_free 5.81 r_scangle_it 3.122 r_scbond_it 2.48 r_mcangle_it 2.026 r_rigid_bond_restr 1.454 r_angle_refined_deg 1.429 r_mcbond_it 1.375 r_nbtor_refined 0.304 r_nbd_refined 0.251 r_symmetry_vdw_refined 0.197 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.1 r_bond_refined_d 0.011 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5292 Nucleic Acid Atoms Solvent Atoms 851 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling