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High resolution structure of C-Phycocyanin from Thermosynechococcus elongatus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KTP PDB ENTRIES 1KTP and 1JBO experimental model PDB 1JBO PDB ENTRIES 1KTP and 1JBO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 8 % PEG 2000 , 0.05 M MES, 20 mM MgCl2, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 290-291K
Crystal Properties Matthews coefficient Solvent content 2.82 56.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 187.1 α = 90 b = 187.1 β = 90 c = 59.82 γ = 120
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 315r Double crystal, Si(111) 2009-08-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.0 ALS 8.2.1
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 1.35 42.79 99.8 0.077 0.077 10.9 6.9 87205 86993 2 1 16.3
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 1.35 1.42 99.7 0.849 2.2 5.9 12693
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 ENTRIES 1KTP and 1JBO 1.35 19.5 82594 4367 99.75 0.13553 0.13343 0.1354 0.17507 0.1742 RANDOM 16.396
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] -0.29 -0.15 -0.29 0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.662 r_dihedral_angle_4_deg 14.835 r_dihedral_angle_3_deg 11.335 r_scangle_it 7.746 r_scbond_it 5.721 r_dihedral_angle_1_deg 4.733 r_mcangle_it 3.621 r_angle_refined_deg 2.693 r_mcbond_it 2.67 r_rigid_bond_restr 2.456
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.662 r_dihedral_angle_4_deg 14.835 r_dihedral_angle_3_deg 11.335 r_scangle_it 7.746 r_scbond_it 5.721 r_dihedral_angle_1_deg 4.733 r_mcangle_it 3.621 r_angle_refined_deg 2.693 r_mcbond_it 2.67 r_rigid_bond_restr 2.456 r_angle_other_deg 1.58 r_mcbond_other 1.414 r_chiral_restr 0.133 r_gen_planes_other 0.029 r_bond_refined_d 0.027 r_gen_planes_refined 0.02 r_bond_other_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2497 Nucleic Acid Atoms Solvent Atoms 573 Heterogen Atoms 129
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling