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Crystal structure of kirola (Act d 11) - triclinic form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4IGV PDB ENTRY 4IGV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 0.15 M citric acid, 0.35 M magnesium chloride, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.43 49.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.144 α = 66.34 b = 56.094 β = 85.37 c = 64.949 γ = 65.24
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 2009-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9786 APS 19-ID
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 2.92 50 98.3 0.103 0.103 8.3 2.1 14019 14019 -3 58
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 2.92 2.97 94.5 0.298 0.298 2.1 2 688
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 4IGV 2.92 50 13275 13275 695 98.24 0.21186 0.21186 0.20951 0.2251 0.25833 0.2798 RANDOM 69.208
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] -2.75 0.73 2.36 -1.26 -1.1 3.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.689 r_dihedral_angle_4_deg 21.347 r_dihedral_angle_3_deg 15.398 r_dihedral_angle_1_deg 5.84 r_angle_other_deg 4.136 r_scangle_it 3.436 r_scbond_it 1.85 r_mcangle_it 1.82 r_angle_refined_deg 1.393 r_mcbond_it 0.953
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.689 r_dihedral_angle_4_deg 21.347 r_dihedral_angle_3_deg 15.398 r_dihedral_angle_1_deg 5.84 r_angle_other_deg 4.136 r_scangle_it 3.436 r_scbond_it 1.85 r_mcangle_it 1.82 r_angle_refined_deg 1.393 r_mcbond_it 0.953 r_chiral_restr 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_gen_planes_other 0.005 r_bond_other_d 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 4796 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms 11
Software Software Software Name Purpose HKL-3000 data collection HKL-3000 phasing MOLREP phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling