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Structure of the reconstituted Peridinin-Chlorophyll a-Protein (RFPCP)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PPR PDB ENTRY 1PPR, N-Domain of M monomer
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 3.3 62.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.69 α = 90 b = 81.623 β = 90 c = 75.08 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 MARMOSAIC 225 mm CCD 2006-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.9797 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.4 35.9 95.7 0.111 14.07 7.6 40040 40040 -3 -3 15.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.4 1.5 92 0.433 4.04 4.1 7115
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 (All) 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 1PPR, N-Domain of M monomer 1.4 35.85 40040 40040 2002 100 0.15353 0.15353 0.15181 0.1535 0.18725 0.1876 RANDOM 11.5
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] -0.04 -0.18 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.917 r_dihedral_angle_3_deg 13.154 r_dihedral_angle_4_deg 7.009 r_dihedral_angle_1_deg 4.166 r_angle_refined_deg 3.339 r_scangle_it 3.116 r_scbond_it 2.131 r_mcangle_it 1.351 r_mcbond_it 0.792 r_chiral_restr 0.263
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.917 r_dihedral_angle_3_deg 13.154 r_dihedral_angle_4_deg 7.009 r_dihedral_angle_1_deg 4.166 r_angle_refined_deg 3.339 r_scangle_it 3.116 r_scbond_it 2.131 r_mcangle_it 1.351 r_mcbond_it 0.792 r_chiral_restr 0.263 r_bond_refined_d 0.017 r_gen_planes_refined 0.016 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 1120 Nucleic Acid Atoms Solvent Atoms 286 Heterogen Atoms 329
Software Software Software Name Purpose XDS data scaling PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling