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The Structure of Allophycocyanin from Gloeobacter Violaceus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KN1 PDB ENTRY 1KN1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 30% W/V PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.37 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 164.712 α = 90 b = 164.712 β = 90 c = 64.685 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 CCD 2006-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 2.5 29.45 99.9 0.14 15.41 6.98 11694 40.44
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 2.5 2.52 100 0.48 2.99 7.07
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 1KN1 2.5 29.2 11691 553 99.9 0.2 0.196 0.277 RANDOM 20.34
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] -3.199 -1.599 -3.199 4.798
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.332 r_dihedral_angle_4_deg 20.672 r_dihedral_angle_3_deg 16.946 r_dihedral_angle_1_deg 5.773 r_scangle_it 2.042 r_angle_refined_deg 1.91 r_scbond_it 1.407 r_mcangle_it 0.816 r_mcbond_it 0.714 r_nbd_refined 0.221
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.332 r_dihedral_angle_4_deg 20.672 r_dihedral_angle_3_deg 16.946 r_dihedral_angle_1_deg 5.773 r_scangle_it 2.042 r_angle_refined_deg 1.91 r_scbond_it 1.407 r_mcangle_it 0.816 r_mcbond_it 0.714 r_nbd_refined 0.221 r_symmetry_hbond_refined 0.212 r_symmetry_vdw_refined 0.19 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.08 r_bond_refined_d 0.015 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_refined 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_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 2432 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing