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Crystal structure of LOV2 domain of Arabidopsis thaliana phototropin 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EES PDB ENTRY 4EES
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 298 37.5% MPEG 2K, 0.2 M imidazole malate, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.95 36.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.502 α = 90 b = 40.502 β = 90 c = 127.315 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD ADSC QUANTUM 315 2009-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 12.3.1 0.97945 ALS 12.3.1
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 1.7 30 11707
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 4EES 1.7 30 11684 620 99.19 0.21395 0.21259 0.2146 0.23809 0.2297 RANDOM 39.629
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] -0.01 -0.01 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.329 r_dihedral_angle_4_deg 15.901 r_scangle_it 13.786 r_dihedral_angle_3_deg 12.994 r_scbond_it 11.189 r_mcangle_it 6.704 r_dihedral_angle_1_deg 5.601 r_mcbond_it 5.3 r_angle_refined_deg 1.032 r_chiral_restr 0.071
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.329 r_dihedral_angle_4_deg 15.901 r_scangle_it 13.786 r_dihedral_angle_3_deg 12.994 r_scbond_it 11.189 r_mcangle_it 6.704 r_dihedral_angle_1_deg 5.601 r_mcbond_it 5.3 r_angle_refined_deg 1.032 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 908 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement