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CRYSTAL STRUCTURE OF PLASTOCYANIN FROM A CYANOBACTERIUM, ANABAENA VARIABILIS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PLC PDB ENTRY 1PLC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 288 PEG6000, HEPES, POTASSIUM PHOSPHATE, SODIUM PHOSPHATE, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 288K
Crystal Properties Matthews coefficient Solvent content 2.3 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.29 α = 90 b = 68.48 β = 109.97 c = 42.26 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 DIFFRACTOMETER NRAF-NONIUS CAD4 GRAPHITE MONOCHROMATOR MIRROR AND SI(111) 1988-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE PHILIPS
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 1.5 10 80.1 0.08 21041 2 11
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 1.5 1.6 24.9 0.37
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1PLC 1.7 39.84 17228 923 82.3 0.141 0.14 0.163 RANDOM 16.56
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] 0.15 -0.17 -0.2 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.724 r_dihedral_angle_3_deg 14.452 r_scangle_it 7.115 r_dihedral_angle_4_deg 6.936 r_dihedral_angle_1_deg 6.197 r_scbond_it 5.64 r_mcangle_it 3.082 r_mcbond_it 2.629 r_angle_refined_deg 1.434 r_angle_other_deg 0.719
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.724 r_dihedral_angle_3_deg 14.452 r_scangle_it 7.115 r_dihedral_angle_4_deg 6.936 r_dihedral_angle_1_deg 6.197 r_scbond_it 5.64 r_mcangle_it 3.082 r_mcbond_it 2.629 r_angle_refined_deg 1.434 r_angle_other_deg 0.719 r_nbd_refined 0.193 r_nbtor_refined 0.181 r_nbd_other 0.165 r_symmetry_hbond_refined 0.128 r_symmetry_vdw_other 0.122 r_xyhbond_nbd_refined 0.11 r_symmetry_vdw_refined 0.092 r_nbtor_other 0.086 r_chiral_restr 0.077 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 1564 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement WEIS data reduction PROTEIN data scaling MERLOT phasing