☰ Navigation Tabs
Structure of Peridinin-Chlorophyll-Protein reconstituted with Chl-b
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IIS PDB ENTRY 3IIS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 296 0.1M CDCL2, 0,1M SODIUM ACETATE PH 4.6, 20-24% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K
Crystal Properties Matthews coefficient Solvent content 2.24 44.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.57 α = 90 b = 82 β = 90 c = 75.41 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 100 CCD MARRESEARCH MIRRORS 2008-05-09 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 1.95 43.15 99.3 0.09 13.8 4 15738 -3
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 1.95 2 93.3 0.31 4.9 2.8
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 3IIS 1.95 43.15 14950 787 100 0.157 0.155 0.1549 0.196 0.1944 RANDOM 12.99
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] 0.09 -0.25 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.34 r_dihedral_angle_3_deg 15.271 r_dihedral_angle_4_deg 5.374 r_scangle_it 4.683 r_dihedral_angle_1_deg 4.401 r_angle_refined_deg 3.476 r_scbond_it 3.285 r_mcangle_it 1.862 r_mcbond_it 1.096 r_chiral_restr 0.248
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.34 r_dihedral_angle_3_deg 15.271 r_dihedral_angle_4_deg 5.374 r_scangle_it 4.683 r_dihedral_angle_1_deg 4.401 r_angle_refined_deg 3.476 r_scbond_it 3.285 r_mcangle_it 1.862 r_mcbond_it 1.096 r_chiral_restr 0.248 r_bond_refined_d 0.025 r_gen_planes_refined 0.014 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_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 1120 Nucleic Acid Atoms Solvent Atoms 196 Heterogen Atoms 334
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing