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Crystal structure of kirola (Act d 11) in P6122 space group
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 0.1 M Bis-Tris, 0.2 M sodium chloride, 25% w/v PEG3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.53 51.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.989 α = 90 b = 59.989 β = 90 c = 339.022 γ = 120
Symmetry Space Group P 61 2 2
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 2.55 50 94.6 0.085 0.085 21.4 6.5 12244 12244 -3 54.2
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 2.55 2.59 95.3 0.61 0.61 3.4 6.4 602
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 2.55 50 11621 11621 597 95.32 0.21973 0.21973 0.21802 0.2213 0.25299 0.2617 RANDOM 55.764
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] -4.03 -2.02 -4.03 6.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.244 r_dihedral_angle_3_deg 15.826 r_dihedral_angle_4_deg 12.85 r_dihedral_angle_1_deg 5.649 r_scangle_it 2.955 r_scbond_it 1.808 r_angle_refined_deg 1.702 r_mcangle_it 1.362 r_angle_other_deg 1.219 r_mcbond_it 0.743
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.244 r_dihedral_angle_3_deg 15.826 r_dihedral_angle_4_deg 12.85 r_dihedral_angle_1_deg 5.649 r_scangle_it 2.955 r_scbond_it 1.808 r_angle_refined_deg 1.702 r_mcangle_it 1.362 r_angle_other_deg 1.219 r_mcbond_it 0.743 r_mcbond_other 0.155 r_chiral_restr 0.092 r_bond_refined_d 0.02 r_bond_other_d 0.013 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2403 Nucleic Acid Atoms Solvent Atoms 56 Heterogen Atoms 15
Software Software Software Name Purpose HKL-3000 data collection HKL-3000 phasing MOLREP phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling