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Crystal Structure of Nostoc sp. 7120 phycocyanobilin:ferredoxin oxidoreductase (PcyA) Apoprotein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 293 18% PEG-8000, 25mM MES-NaOH, 50mM Calcium acetate, 10% dioxine, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K, pH 6.50
Crystal Properties Matthews coefficient Solvent content 1.96 37.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.501 α = 90 b = 141.332 β = 91.29 c = 121.842 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 100 CCD ADSC QUANTUM 315 DOUBLE CRYSTAL MONOCHROMATOR 2005-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 43.94 99.7 0.084 0.084 13.9 3.7 91664
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.59 100 0.383 0.383 3.3 3.6
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 2.5 43.94 91598 86919 4583 99.68 0.21326 0.2109 0.2059 0.25716 0.2046 RANDOM 53.428
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] -0.45 -0.47 -0.86 1.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.835 r_dihedral_angle_4_deg 21.011 r_dihedral_angle_3_deg 17.998 r_dihedral_angle_1_deg 7.144 r_scangle_it 4.598 r_scbond_it 2.864 r_mcangle_it 1.671 r_angle_refined_deg 1.501 r_mcbond_it 1.476 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.835 r_dihedral_angle_4_deg 21.011 r_dihedral_angle_3_deg 17.998 r_dihedral_angle_1_deg 7.144 r_scangle_it 4.598 r_scbond_it 2.864 r_mcangle_it 1.671 r_angle_refined_deg 1.501 r_mcbond_it 1.476 r_nbtor_refined 0.314 r_symmetry_vdw_refined 0.3 r_metal_ion_refined 0.241 r_symmetry_hbond_refined 0.239 r_nbd_refined 0.232 r_xyhbond_nbd_refined 0.177 r_chiral_restr 0.098 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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_other r_symmetry_vdw_other 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 23422 Nucleic Acid Atoms Solvent Atoms 190 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing